Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 58 of 126
Found at i:16946025 original size:41 final size:44
Alignment explanation
Indices: 16945874--16945995 Score: 113
Period size: 44 Copynumber: 2.8 Consensus size: 44
16945864 AAGAATTTCA
* ** * * * *
16945874 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATT-GAAGCTAG
1 GATCTTATCTCTCTGAGATTACAGTAGAGCGGATTAAAACCAAG
* * * *
16945917 TAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACCAAG
1 -GATCTTATCTCTCTGAGATTACAGTAGAGCGGATTAAAACCAAG
16945962 GATCTTATCTCTCTGA-AGTTACAGTAGAGCGGAT
1 GATCTTATCTCTCTGAGA-TTACAGTAGAGCGGAT
16945996 CGCACCAGGT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
43 1 0.02
44 59 0.91
45 5 0.08
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
GATCTTATCTCTCTGAGATTACAGTAGAGCGGATTAAAACCAAG
Found at i:16946096 original size:175 final size:173
Alignment explanation
Indices: 16945805--16946716 Score: 1395
Period size: 175 Copynumber: 5.3 Consensus size: 173
16945795 TAAAGGATCT
*
16945805 TTACAGTAGAGCAGATCGCACCAGGTCTTATTTCCCTGAGATTACAGTGAAACAGACTGAAGAAT
1 TTACAGTAGAGCAGATCGCACCAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAAT
16945870 TTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAG
66 TTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAG
16945935 ATTACAGTGGAGCGGATTAAAACCAAGGATCTTATCTCTCTGAAG
131 ATTACAGTGGAGCGGATTAAAA--AAGGATCTTATCTCTCTGAAG
* ** * *
16945980 TTACAGTAGAGCGGATCGCACCAGGTCTTATTTCTTTGAGATTACACTGGAACAAACTGAAGAAT
1 TTACAGTAGAGCAGATCGCACCAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAAT
* * * *
16946045 TTCAGATCCTATCTCCTTGAAATTACAGCGAAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAG
66 TTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAG
*
16946110 ATTACAGTGGAGCGGATT---AGAGGATCTTATCTCTCTGAAG
131 ATTACAGTGGAGCGGATTAAAAAAGGATCTTATCTCTCTGAAG
* *
16946150 TTACAGTAGAGCAGATCGCACTAGGTCTTATTTCCCTCAGATTACAGTGGAACAGACTGAAGAAT
1 TTACAGTAGAGCAGATCGCACCAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAAT
* *
16946215 TTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAACTAGTAATCCTATCTCCCTGAT
66 TTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAG
*
16946280 ATTACAGTGGAGCAGATTAAAACCAAGGATCTTATCTCTCTGAAG
131 ATTACAGTGGAGCGGATTAAAA--AAGGATCTTATCTCTCTGAAG
* * *
16946325 TTACAGTAGAGCGGATCGCACCAGGTCTTATTTCCCTGAGATTATAATGGAACAGACTGAAGAAT
1 TTACAGTAGAGCAGATCGCACCAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAAT
16946390 TTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAG
66 TTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAG
*
16946455 ATTACAGTGGAGCGGATT---AGAGGATCTTATCTCTCTGAAG
131 ATTACAGTGGAGCGGATTAAAAAAGGATCTTATCTCTCTGAAG
* * *
16946495 TTATAGTAGAGCAGATCGCACTAGGTCTTATTTCCCTGAGATTACAGTGGAACAGATTGAAGAAT
1 TTACAGTAGAGCAGATCGCACCAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAAT
* * * * *
16946560 TTCAGATTTTATCTCCCTAAGATTACAGCGGAGCATATTGAAGCTAGTAATCCCATCTCCTTGAG
66 TTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAG
* *
16946625 ATTAAAGTGGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAG
131 ATTACAGTGGAGCGGATT-AAA-AAAGGATCTTATCTCTCTGAAG
* *** * * *
16946670 TTACAGTAGAGTAGATCGTGTCAGATCTTATCTCCCCGAGATTACAG
1 TTACAGTAGAGCAGATCGCACCAGGTCTTATTTCCCTGAGATTACAG
16946717 CGGAGTAGAT
Statistics
Matches: 669, Mismatches: 58, Indels: 20
0.90 0.08 0.03
Matches are distributed among these distances:
170 309 0.46
172 2 0.00
173 1 0.00
175 357 0.53
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.29
Consensus pattern (173 bp):
TTACAGTAGAGCAGATCGCACCAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAAT
TTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAG
ATTACAGTGGAGCGGATTAAAAAAGGATCTTATCTCTCTGAAG
Found at i:16946287 original size:345 final size:345
Alignment explanation
Indices: 16945669--16946680 Score: 1636
Period size: 345 Copynumber: 3.0 Consensus size: 345
16945659 GTTCATTATA
** * * *
16945669 CAGGTCTTATTTCCCTGAGATTACGGTGGAATAGACCGAAGAATTGCAGATCTTATCTCCCTGAG
1 CAGGTCTTATTTCCCTGAGATTACAATGGAACAGACTGAAGAATTTCAGATCTTATCTCCCTGAG
* *
16945734 ATTATAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
66 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAGA
*
16945799 GG-----A----TCT----TTACAGTAGAGCAGATCGCACCAGGTCTTATTTCCCTGAGATTACA
131 GGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACTAGGTCTTATTTCCCTGAGATTACA
*
16945851 GTGAAACAGACTGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTA
196 GTGGAACAGACTGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTA
16945916 GTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACCAAGGATCTTATCTCTCTGAAGT
261 GTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACCAAGGATCTTATCTCTCTGAAGT
16945981 TACAGTAGAGCGGATCGCAC
326 TACAGTAGAGCGGATCGCAC
** * * * * *
16946001 CAGGTCTTATTTCTTTGAGATTACACTGGAACAAACTGAAGAATTTCAGATCCTATCTCCTTGAA
1 CAGGTCTTATTTCCCTGAGATTACAATGGAACAGACTGAAGAATTTCAGATCTTATCTCCCTGAG
*
16946066 ATTACAGCGAAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAGA
66 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAGA
*
16946131 GGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACTAGGTCTTATTTCCCTCAGATTACA
131 GGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACTAGGTCTTATTTCCCTGAGATTACA
*
16946196 GTGGAACAGACTGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAACTA
196 GTGGAACAGACTGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTA
* *
16946261 GTAATCCTATCTCCCTGATATTACAGTGGAGCAGATTAAAACCAAGGATCTTATCTCTCTGAAGT
261 GTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACCAAGGATCTTATCTCTCTGAAGT
16946326 TACAGTAGAGCGGATCGCAC
326 TACAGTAGAGCGGATCGCAC
*
16946346 CAGGTCTTATTTCCCTGAGATTATAATGGAACAGACTGAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATTTCCCTGAGATTACAATGGAACAGACTGAAGAATTTCAGATCTTATCTCCCTGAG
16946411 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAGA
66 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAGA
*
16946476 GGATCTTATCTCTCTGAAGTTATAGTAGAGCAGATCGCACTAGGTCTTATTTCCCTGAGATTACA
131 GGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACTAGGTCTTATTTCCCTGAGATTACA
* * * *
16946541 GTGGAACAGATTGAAGAATTTCAGATTTTATCTCCCTAAGATTACAGCGGAGCATATTGAAGCTA
196 GTGGAACAGACTGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTA
* * * * **
16946606 GTAATCCCATCTCCTTGAGATTAAAGTGGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAGT
261 GTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACCAAGGATCTTATCTCTCTGAAGT
16946671 TACAGTAGAG
326 TACAGTAGAG
16946681 TAGATCGTGT
Statistics
Matches: 623, Mismatches: 44, Indels: 13
0.92 0.06 0.02
Matches are distributed among these distances:
332 118 0.19
337 1 0.00
341 3 0.00
345 501 0.80
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (345 bp):
CAGGTCTTATTTCCCTGAGATTACAATGGAACAGACTGAAGAATTTCAGATCTTATCTCCCTGAG
ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAGA
GGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACTAGGTCTTATTTCCCTGAGATTACA
GTGGAACAGACTGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTA
GTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACCAAGGATCTTATCTCTCTGAAGT
TACAGTAGAGCGGATCGCAC
Found at i:16946791 original size:129 final size:128
Alignment explanation
Indices: 16946561--16947006 Score: 615
Period size: 129 Copynumber: 3.5 Consensus size: 128
16946551 TTGAAGAATT
* * * *
16946561 TCAGATTTTATCTCCCTAAGATTACAGCGGAGCATATTGAAGCTAGTAATCCCATCTCCTTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCC-TGAGA
*
16946626 TTAAAGTGGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
65 TTACAGTGGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
* *
16946690 TCAGATCTTATCTCCCCGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCACTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTC-CTGAGA
*
16946755 TTACAGTGGAGC-AGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAAATCGTG
65 TTACAGTGGAGCGA-ATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
* *
16946819 TCAGATCTTACCTCTCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTTCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATC-TCCTGAGA
* * * **
16946884 TTACAGTGGAGCGAATTAAAATAAAGGATTTTATCACTCTGAAGTTACAGTAGAGTAGATAGCA
65 TTACAGTGGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
* * * * * * * * * * *
16946948 TCAGGTTTTACCTCCCTGTGGTTACAGTGGAGTATATAGAAGCCAGTAATTCTATCTCC
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCC
16947007 CCGATATTGC
Statistics
Matches: 284, Mismatches: 29, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
128 4 0.01
129 276 0.97
130 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (128 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCTGAGAT
TACAGTGGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
Found at i:16947094 original size:258 final size:254
Alignment explanation
Indices: 16946570--16947095 Score: 538
Period size: 258 Copynumber: 2.0 Consensus size: 254
16946560 TTCAGATTTT
* * *
16946570 ATCTCCCTAAGATTACAGCGGAGCATATTGAAGCTAGTAATCCCATCTCCTTGAGATTAAAGTGG
1 ATCTCTCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCTTGAGATTAAAGTGG
* * **
16946635 AGCGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTGTCAGATCTTA
66 AGCGAATTAAAATAAAGGATCTTATCACTCTGAAGTTACAGTAGAGTAGATAGCATCAGATCTTA
* * * *
16946700 TCTCCCCGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCACTGAGATTACAGTGGA
131 CCTCCCCGAGATTACAGCGGAGTAGATAGAAGCCAGTAATCCTATCTCACCGAGATTACAGTGGA
** * * * * *** **
16946765 GCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAAATCGTGTCAGATCTT
196 GCAGAGCAAAAT--A-GA-CCTATCTCCCTGAAGTTACAGTAGAGGAAATAGCCACAGATCCG
* * *
16946828 ACCTCTCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTTCC-TGAGATTACAGTG
1 ATCTCTCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCCATC-TCCTTGAGATTAAAGTG
* * *
16946892 GAGCGAATTAAAATAAAGGATTTTATCACTCTGAAGTTACAGTAGAGTAGATAGCATCAGGTTTT
65 GAGCGAATTAAAATAAAGGATCTTATCACTCTGAAGTTACAGTAGAGTAGATAGCATCAGATCTT
* * * * * * * * *
16946957 ACCTCCCTGTGGTTACAGTGGAGTATATAGAAGCCAGTAATTCTATCTCCCCGATATTGCGGAGT
130 ACCTCCCCGAGATTACAGCGGAGTAGATAGAAGCCAGTAATCCTATCTCACCGAGATTAC--AGT
* * * * *
16947022 GG-GCCAGAGCACCAAT-G-CCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAGAACCACAGATC
193 GGAG-CAGAGCA-AAATAGACCTATCTCCCTGAAGTTACAGTAGAG-GAAATAG--CCACAGATC
16947084 CG
253 CG
16947086 ATCTCTCTGA
1 ATCTCTCTGA
16947096 AGGGCAGTAG
Statistics
Matches: 217, Mismatches: 43, Indels: 16
0.79 0.16 0.06
Matches are distributed among these distances:
255 22 0.10
256 3 0.01
257 1 0.00
258 174 0.80
259 4 0.02
260 10 0.05
261 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (254 bp):
ATCTCTCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCCATCTCCTTGAGATTAAAGTGG
AGCGAATTAAAATAAAGGATCTTATCACTCTGAAGTTACAGTAGAGTAGATAGCATCAGATCTTA
CCTCCCCGAGATTACAGCGGAGTAGATAGAAGCCAGTAATCCTATCTCACCGAGATTACAGTGGA
GCAGAGCAAAATAGACCTATCTCCCTGAAGTTACAGTAGAGGAAATAGCCACAGATCCG
Found at i:16948381 original size:3 final size:3
Alignment explanation
Indices: 16948373--16948405 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
16948363 ACAAATTTCA
16948373 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
16948406 AACAATCTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:16949462 original size:24 final size:24
Alignment explanation
Indices: 16949435--16949486 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
16949425 TTAGTAAGTC
*
16949435 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
16949459 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
16949483 AAAT
1 AAAT
16949487 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:16952221 original size:21 final size:21
Alignment explanation
Indices: 16952197--16952275 Score: 61
Period size: 21 Copynumber: 3.6 Consensus size: 21
16952187 ATATATATTC
16952197 TTTAGAATTTTTTTAAAAAAA
1 TTTAGAATTTTTTTAAAAAAA
* *
16952218 TTTATAATTTTTTAAAATATATATA
1 TTTAGAATTTTTTTAAA-A-A-A-A
* *
16952243 TTTTAGAA-TTTTTTATAAATA
1 -TTTAGAATTTTTTTAAAAAAA
*
16952264 TTTTGAATTTTT
1 TTTAGAATTTTT
16952276 GAATTTTTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
20 6 0.13
21 20 0.44
22 1 0.02
23 2 0.04
24 2 0.04
25 8 0.18
26 6 0.13
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (21 bp):
TTTAGAATTTTTTTAAAAAAA
Found at i:16952242 original size:19 final size:19
Alignment explanation
Indices: 16952205--16952246 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
16952195 TCTTTAGAAT
*
16952205 TTTTTTAAAAAAATTTATAA
1 TTTTTTAAAAAAATATAT-A
*
16952225 TTTTTT-AAAATATATATA
1 TTTTTTAAAAAAATATATA
16952243 TTTT
1 TTTT
16952247 AGAATTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 9 0.45
20 6 0.30
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTTTTAAAAAAATATATA
Found at i:16952273 original size:20 final size:21
Alignment explanation
Indices: 16952235--16952275 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
16952225 TTTTTTAAAA
*
16952235 TATATATATTTTAGAATTTTT
1 TATAAATATTTTAGAATTTTT
16952256 TATAAATATTTT-GAATTTTT
1 TATAAATATTTTAGAATTTTT
16952276 GAATTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (21 bp):
TATAAATATTTTAGAATTTTT
Found at i:16952274 original size:28 final size:26
Alignment explanation
Indices: 16952186--16952264 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 26
16952176 TAACATTCTT
*
16952186 TATATATATTCTTTAGAATTTTTTTAAA
1 TATATATA-T-TTTAGAATTTTTTAAAA
*
16952214 -A-A-A-A-TTTATAATTTTTTAAAA
1 TATATATATTTTAGAATTTTTTAAAA
16952235 TATATATATTTTAGAATTTTTTATAAA
1 TATATATATTTTAGAATTTTTTA-AAA
16952262 TAT
1 TAT
16952265 TTTGAATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 13
0.72 0.05 0.22
Matches are distributed among these distances:
21 15 0.36
22 1 0.02
23 1 0.02
24 2 0.05
25 2 0.05
26 14 0.33
27 7 0.17
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (26 bp):
TATATATATTTTAGAATTTTTTAAAA
Found at i:16957757 original size:15 final size:15
Alignment explanation
Indices: 16957737--16957773 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
16957727 CTCCGAGAGT
16957737 TGAAAACTTTATTAA
1 TGAAAACTTTATTAA
16957752 TGAAAACTTTATTAA
1 TGAAAACTTTATTAA
16957767 TGAAAAC
1 TGAAAAC
16957774 AATTGTGTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (15 bp):
TGAAAACTTTATTAA
Found at i:16965321 original size:45 final size:44
Alignment explanation
Indices: 16965256--16965345 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 44
16965246 GAATTGAGGC
**
16965256 GTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAAT
1 GTAATGGAATAGAGACGTAATAG-AAATCAACTGTTTGGTTGAAT
* ***
16965301 GTAATGGAATAGAGACGTAATAGTAATCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGACGTAATAGAAATCAACTGTTTGGTTGAAT
16965345 G
1 G
16965346 AAATAGAGGT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.46
45 21 0.54
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.33
Consensus pattern (44 bp):
GTAATGGAATAGAGACGTAATAGAAATCAACTGTTTGGTTGAAT
Found at i:16965537 original size:18 final size:17
Alignment explanation
Indices: 16965516--16965550 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16965506 TTATTATTAA
*
16965516 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
16965534 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
16965551 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:16965663 original size:14 final size:14
Alignment explanation
Indices: 16965606--16965660 Score: 62
Period size: 14 Copynumber: 4.1 Consensus size: 14
16965596 TATGATACTA
16965606 TAAAATA-TA-AAT
1 TAAAATATTATAAT
* *
16965618 TAACATAATTATTAT
1 TAAAAT-ATTATAAT
16965633 TAAAATATTATAAT
1 TAAAATATTATAAT
16965647 TAAAATA-TATAAT
1 TAAAATATTATAAT
16965660 T
1 T
16965661 TAATAAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
12 5 0.14
13 8 0.22
14 16 0.44
15 7 0.19
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (14 bp):
TAAAATATTATAAT
Found at i:16965711 original size:119 final size:121
Alignment explanation
Indices: 16965499--16965790 Score: 509
Period size: 119 Copynumber: 2.4 Consensus size: 121
16965489 ATCATATTTA
16965499 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
16965564 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* *
16965619 AACATAATTATTATTAAA-ATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
16965683 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
* *
16965739 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
16965791 TAAAATAATT
Statistics
Matches: 163, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
119 111 0.68
120 52 0.32
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.42
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
Found at i:16965838 original size:101 final size:93
Alignment explanation
Indices: 16965731--16966013 Score: 317
Period size: 91 Copynumber: 3.0 Consensus size: 93
16965721 ACTATAAAAG
* * * *
16965731 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
* *
16965795 ATAATTATAACTAATAAATTATCTTATATGAATTTGT
62 -T--CT-TAA-TAATAAATTATCTTATATGAATTTAT
* *
16965832 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
* *
16965895 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTATCTTATATGAATTTAT
* *
16965923 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
16965986 AATAATAAAATGT-TCTTATATGAATTTA
66 AATAAT-AAAT-TATCTTATATGAATTTA
16966014 CTAAAATCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 15
0.85 0.08 0.08
Matches are distributed among these distances:
91 88 0.54
92 21 0.13
93 2 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 48 0.29
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
AATAATAAATTATCTTATATGAATTTAT
Found at i:16965860 original size:26 final size:28
Alignment explanation
Indices: 16965831--16965891 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
16965821 TATGAATTTG
*
16965831 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
16965857 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
16965885 TAAAATT
1 TATAATT
16965892 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:16965889 original size:47 final size:46
Alignment explanation
Indices: 16965838--16965981 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
16965828 TTGTATAATT
16965838 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
16965885 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
16965929 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
16965976 TAAAAT
1 TAAAAT
16965982 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:16965901 original size:91 final size:90
Alignment explanation
Indices: 16965806--16966013 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 90
16965796 TAATTATAAC
* * * *
16965806 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
16965871 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
16965897 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAA-TTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
16965962 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
16965988 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAAT-TTCTTATATGAATTTA
16966014 CTAAAATCAA
Statistics
Matches: 108, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
91 87 0.81
92 21 0.19
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:16965973 original size:44 final size:43
Alignment explanation
Indices: 16965831--16965973 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
16965821 TATGAATTTG
* *
16965831 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
16965875 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
16965922 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
16965966 TATAATTT
1 TATAATTT
16965974 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:16965988 original size:47 final size:47
Alignment explanation
Indices: 16965856--16965994 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
16965846 TTATTATTAC
* *
16965856 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
16965903 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
16965947 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
16965994 A
1 A
16965995 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:16967123 original size:13 final size:13
Alignment explanation
Indices: 16967090--16967117 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
16967080 AAACTAGATA
16967090 CATAAAATAACAT
1 CATAAAATAACAT
16967103 CATAAAATAACAT
1 CATAAAATAACAT
16967116 CA
1 CA
16967118 ACAAATTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.18, G:0.00, T:0.21
Consensus pattern (13 bp):
CATAAAATAACAT
Found at i:16968845 original size:13 final size:13
Alignment explanation
Indices: 16968827--16968852 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16968817 TGCTTTTGAG
16968827 TTCAAAAATAATT
1 TTCAAAAATAATT
16968840 TTCAAAAATAATT
1 TTCAAAAATAATT
16968853 CTGATTTAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
TTCAAAAATAATT
Found at i:16970707 original size:13 final size:13
Alignment explanation
Indices: 16970689--16970716 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
16970679 CAATACAGGC
16970689 AAGAACCGAAACA
1 AAGAACCGAAACA
16970702 AAGAACCGAAACA
1 AAGAACCGAAACA
16970715 AA
1 AA
16970717 TAATGCAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.21, G:0.14, T:0.00
Consensus pattern (13 bp):
AAGAACCGAAACA
Found at i:16973278 original size:15 final size:15
Alignment explanation
Indices: 16973243--16973284 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
16973233 TTTTTTTATA
16973243 AATTTTTA-ATAAAT
1 AATTTTTACATAAAT
*
16973257 ATATTTTTACATAAGT
1 A-ATTTTTACATAAAT
16973273 -ATTTTTACATAA
1 AATTTTTACATAA
16973285 TTTTTTTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 13 0.52
15 7 0.28
16 5 0.20
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (15 bp):
AATTTTTACATAAAT
Found at i:16973291 original size:14 final size:14
Alignment explanation
Indices: 16973258--16973284 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16973248 TTAATAAATA
16973258 TATTTTTACATAAG
1 TATTTTTACATAAG
16973272 TATTTTTACATAA
1 TATTTTTACATAA
16973285 TTTTTTTCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (14 bp):
TATTTTTACATAAG
Found at i:16980639 original size:18 final size:18
Alignment explanation
Indices: 16980616--16980658 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
16980606 AGGGGTAGTG
*
16980616 GGCCCAAGAGGAGCATTC
1 GGCCCAAAAGGAGCATTC
16980634 GGCCCAAAAGGAGCATTC
1 GGCCCAAAAGGAGCATTC
16980652 GGCCCAA
1 GGCCCAA
16980659 TATTAGTAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.30, C:0.30, G:0.30, T:0.09
Consensus pattern (18 bp):
GGCCCAAAAGGAGCATTC
Found at i:16980846 original size:21 final size:21
Alignment explanation
Indices: 16980822--16980862 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
16980812 TATACCCATC
16980822 AGCACACA-CATTTTGACCAGA
1 AGCACA-ATCATTTTGACCAGA
*
16980843 AGCACAATTATTTTGACCAG
1 AGCACAATCATTTTGACCAG
16980863 CCCCAAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (21 bp):
AGCACAATCATTTTGACCAGA
Found at i:16987730 original size:20 final size:21
Alignment explanation
Indices: 16987693--16987732 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
16987683 CTCCATTTGG
*
16987693 AAAAATTACTTTTGAAAAGTC
1 AAAAATTACCTTTGAAAAGTC
*
16987714 AAAAATTTCCTTT-AAAAGT
1 AAAAATTACCTTTGAAAAGT
16987733 TGTTTGTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.35
Consensus pattern (21 bp):
AAAAATTACCTTTGAAAAGTC
Found at i:16988085 original size:19 final size:20
Alignment explanation
Indices: 16988048--16988089 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
16988038 AAAAAACTTT
16988048 CAAAATATAATTTTATTAAA
1 CAAAATATAATTTTATTAAA
16988068 CAAAA-ATAATATTT-TTAAA
1 CAAAATATAAT-TTTATTAAA
16988087 CAA
1 CAA
16988090 TAAGTGTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (20 bp):
CAAAATATAATTTTATTAAA
Found at i:16988565 original size:12 final size:12
Alignment explanation
Indices: 16988548--16988600 Score: 58
Period size: 12 Copynumber: 4.6 Consensus size: 12
16988538 TTTTCACAAA
16988548 CAAATTCTCTCT
1 CAAATTCTCTCT
*
16988560 CAAATTTTCTCT
1 CAAATTCTCTCT
*
16988572 CAATTTC-CT-T
1 CAAATTCTCTCT
16988582 CCAAATT-TCTCT
1 -CAAATTCTCTCT
16988594 CAAATTC
1 CAAATTC
16988601 ATATTTAATC
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
10 1 0.03
11 15 0.45
12 17 0.52
ACGTcount: A:0.26, C:0.30, G:0.00, T:0.43
Consensus pattern (12 bp):
CAAATTCTCTCT
Found at i:16991733 original size:18 final size:16
Alignment explanation
Indices: 16991692--16991736 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 16
16991682 CATTTTAAAT
*
16991692 TTTTATATATAATATA
1 TTTTATATATAACATA
16991708 TGTTTATATATATACATCA
1 T-TTTATATATA-ACAT-A
16991727 TTTTATATAT
1 TTTTATATAT
16991737 GTTATTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 1 0.04
17 10 0.40
18 12 0.48
19 2 0.08
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (16 bp):
TTTTATATATAACATA
Found at i:16991812 original size:21 final size:21
Alignment explanation
Indices: 16991787--16991826 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16991777 CCAATTTTCT
16991787 CTTTTATATATTATATTAAAC
1 CTTTTATATATTATATTAAAC
* *
16991808 CTTTTATTTATTATCTTAA
1 CTTTTATATATTATATTAA
16991827 CCTAACTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (21 bp):
CTTTTATATATTATATTAAAC
Found at i:16994220 original size:22 final size:21
Alignment explanation
Indices: 16994159--16994279 Score: 145
Period size: 22 Copynumber: 5.6 Consensus size: 21
16994149 TAACCCTAAT
*
16994159 CCTAACCCTTAACTTAAAAAC
1 CCTAACCCTAAACTTAAAAAC
*
16994180 TCTAACCCTTAAA-TTAAAAAC
1 CCTAACCC-TAAACTTAAAAAC
*
16994201 GCTAACCCTAAACTTAAAAAAC
1 CCTAACCCTAAACTT-AAAAAC
* *
16994223 TCAAACCCTAAACTTAAAAAC
1 CCTAACCCTAAACTTAAAAAC
*
16994244 CCTAAACCCTAAATTTAAAAAC
1 CCT-AACCCTAAACTTAAAAAC
16994266 CCTAAACCCTAAAC
1 CCT-AACCCTAAAC
16994280 CCTAAACCTA
Statistics
Matches: 87, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
20 4 0.05
21 31 0.36
22 52 0.60
ACGTcount: A:0.48, C:0.30, G:0.01, T:0.21
Consensus pattern (21 bp):
CCTAACCCTAAACTTAAAAAC
Found at i:16994273 original size:44 final size:44
Alignment explanation
Indices: 16994162--16994373 Score: 189
Period size: 44 Copynumber: 4.7 Consensus size: 44
16994152 CCCTAATCCT
* * *
16994162 AACCCTTAACTTAAAAACTCT-AACCCTTAAA-TTAAAAACGCT-
1 AACCCTAAACTTAAAAACACTAAACCC-TAAACTTAAAAACCCTA
16994204 AACCCTAAACTTAAAAA-ACTCAAACCCTAAACTTAAAAACCCTA
1 AACCCTAAACTTAAAAACACT-AAACCCTAAACTTAAAAACCCTA
* * *
16994248 AACCCTAAATTTAAAAACCCTAAACCCTAAACCCTAAACCTAAAAACCATA
1 AACCCTAAACTTAAAAA--C---A--CTAAACCCTAAACTTAAAAACCCTA
* * * * * *
16994299 AACCCTGAACCTAAAAATAATAAACCATAAACCTAAAAACCCTA
1 AACCCTAAACTTAAAAACACTAAACCCTAAACTTAAAAACCCTA
* *
16994343 AACACTAAACTTAAAAACCCTAAACCCTAAA
1 AACCCTAAACTTAAAAACACTAAACCCTAAA
16994374 ACCTTAACTT
Statistics
Matches: 138, Mismatches: 20, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
41 2 0.01
42 20 0.14
43 15 0.11
44 62 0.45
46 1 0.01
50 1 0.01
51 35 0.25
52 2 0.01
ACGTcount: A:0.51, C:0.29, G:0.01, T:0.19
Consensus pattern (44 bp):
AACCCTAAACTTAAAAACACTAAACCCTAAACTTAAAAACCCTA
Found at i:16994276 original size:29 final size:29
Alignment explanation
Indices: 16994240--16994398 Score: 117
Period size: 29 Copynumber: 5.2 Consensus size: 29
16994230 CTAAACTTAA
16994240 AAACCCTAAACCCTAAATTTAAAAACCCT
1 AAACCCTAAACCCTAAATTTAAAAACCCT
** *
16994269 AAACCCTAAACCCTAAACCTAAAAACCAT
1 AAACCCTAAACCCTAAATTTAAAAACCCT
* * *
16994298 AAACCCTGAA-CCTAAAAATAATAAACCATAAACCT
1 AAACCCTAAACCCT--AAAT--TTAA--A-AACCCT
* *
16994333 AAAAACCCTAAACACTAAACTTAAAAACCCT
1 --AAACCCTAAACCCTAAATTTAAAAACCCT
* *
16994364 AAACCCTAAAACCTTAACTTT-AAAACCCT
1 AAACCCT-AAACCCTAAATTTAAAAACCCT
16994393 -AACCCT
1 AAACCCT
16994399 TAAGTTAAAT
Statistics
Matches: 101, Mismatches: 18, Indels: 23
0.71 0.13 0.16
Matches are distributed among these distances:
28 9 0.09
29 50 0.50
30 12 0.12
31 5 0.05
32 3 0.03
34 4 0.04
35 4 0.04
36 3 0.03
37 9 0.09
38 2 0.02
ACGTcount: A:0.50, C:0.31, G:0.01, T:0.18
Consensus pattern (29 bp):
AAACCCTAAACCCTAAATTTAAAAACCCT
Found at i:16994291 original size:6 final size:7
Alignment explanation
Indices: 16994240--16994313 Score: 55
Period size: 7 Copynumber: 10.4 Consensus size: 7
16994230 CTAAACTTAA
16994240 AAACCCT
1 AAACCCT
16994247 AAACCCT
1 AAACCCT
**
16994254 AAA-TTT
1 AAACCCT
16994260 AAAAACCCT
1 --AAACCCT
16994269 AAACCCT
1 AAACCCT
16994276 AAACCCT
1 AAACCCT
16994283 AAA-CCT
1 AAACCCT
*
16994289 AAAAACCAT
1 --AAACCCT
16994298 AAACCCT
1 AAACCCT
*
16994305 GAA-CCT
1 AAACCCT
16994311 AAA
1 AAA
16994314 AATAATAAAC
Statistics
Matches: 53, Mismatches: 8, Indels: 13
0.72 0.11 0.18
Matches are distributed among these distances:
6 9 0.17
7 35 0.66
8 6 0.11
9 3 0.06
ACGTcount: A:0.50, C:0.32, G:0.01, T:0.16
Consensus pattern (7 bp):
AAACCCT
Found at i:16994294 original size:22 final size:22
Alignment explanation
Indices: 16994269--16994373 Score: 138
Period size: 22 Copynumber: 4.8 Consensus size: 22
16994259 TAAAAACCCT
16994269 AAACCCTAAACCCTAAACCTAA
1 AAACCCTAAACCCTAAACCTAA
* *
16994291 AAACCATAAACCCTGAACCTAA
1 AAACCCTAAACCCTAAACCTAA
*** *
16994313 AAATAATAAACCATAAACCTAA
1 AAACCCTAAACCCTAAACCTAA
* *
16994335 AAACCCTAAACACTAAACTTAA
1 AAACCCTAAACCCTAAACCTAA
16994357 AAACCCTAAACCCTAAA
1 AAACCCTAAACCCTAAA
16994374 ACCTTAACTT
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 70 1.00
ACGTcount: A:0.54, C:0.30, G:0.01, T:0.15
Consensus pattern (22 bp):
AAACCCTAAACCCTAAACCTAA
Found at i:16996965 original size:177 final size:177
Alignment explanation
Indices: 16996622--16997386 Score: 699
Period size: 177 Copynumber: 4.3 Consensus size: 177
16996612 CCAATATAAA
* * * * * *** * * *
16996622 AAGACAAGATCTGCTATCTTTGATTTATTTCA-CGCCAATACATGAAGATAATATCTGTTTTCTT
1 AAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCTTTCTT
* * *
16996686 CGATCTACTTCGCCACCAGTATGGGAAGACCAGATCTGCATCTTCGATCCACTTCCTACCAATAT
66 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTACTTCCTACCAATAT
* * * * *
16996751 AGGAAGATAGGATCTGTTATCTTCGATCTATTTCACGCCAATACATG
131 AGGAAGACAGAATCTGCTATTTTCGATCTACTTCACGCCAATACATG
* * *
16996798 AAGATAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGATAAGATCTGCTTTCTT
1 AAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCTTTCTT
*
16996863 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTACTTCCTTCCAATAT
66 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTACTTCCTACCAATAT
**
16996928 AGGAAGACAGAATCTGGAATTTTCGATCTACTTCACGCCAATACATG
131 AGGAAGACAGAATCTGCTATTTTCGATCTACTTCACGCCAATACATG
* * *
16996975 AAGACAAGATCTACTTTTTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGC-ATCTT
1 AAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCTTTCTT
* * * * * * * *
16997039 CGATCCACTTC-CTACCAATATAGGAAGACAGGATATGTGATCTTCAATCTACTTCAC-GCCAAT
66 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG-CATCTTCGATCTACTTC-CTACCAAT
* * * * * ***
16997102 ACATGAAGACA-AGATCTACTTTTTTCGATCTACTTCACCACCAATATGGG
129 ATAGGAAGACAGA-ATCTGCTATTTTCGATCTACTTCA-CGCCAATACATG
* * ** * *
16997152 AAGACAAGATCTGC-ATCTTCGATCTACTTC-CTACCAATATAAGAAGACAGGAACTG-TTATCT
1 AAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCTT-TCT
* * *** * * * * * *
16997214 TCGATCTACTTC-ACGCCAATACATGAAGAAAATATCTACTTTCTTCGATCTACTTCGCCACCAG
65 TCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCTACTTC-CTACCAA
* * * * * * *
16997278 TATGGGAAGACA-AGATCTGC-ATCTTCGATCCACTTCGCTACCAATATAGG
128 TATAGGAAGACAGA-ATCTGCTATTTTCGATCTACTTCAC-GCCAATACATG
* * * * **
16997328 AAGACAGGATCTGCTATCTTCGGTCTACTTCA-CGCCAATATATGAAGACAAGATCTGCT
1 AAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCT
16997387 GCTTTTTAGC
Statistics
Matches: 488, Mismatches: 88, Indels: 24
0.81 0.15 0.04
Matches are distributed among these distances:
175 45 0.09
176 185 0.38
177 257 0.53
178 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (177 bp):
AAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCTTTCTT
CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTACTTCCTACCAATAT
AGGAAGACAGAATCTGCTATTTTCGATCTACTTCACGCCAATACATG
Found at i:16997159 original size:264 final size:265
Alignment explanation
Indices: 16996726--16997383 Score: 885
Period size: 264 Copynumber: 2.5 Consensus size: 265
16996716 CAGATCTGCA
* * * * * * * * * *
16996726 TCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGTTATCTTCGATCTATTTCAC-GC
1 TCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTG-CATCTTCGATCCACTTCGCTAC
* * * * * * * * * *** *
16996789 CAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGATAAGATC
65 CAATATAGGAAGACAGGATATGCTATCTTCAATCTACTTCA-CGCCAATACATGAAGACAAGATC
* *
16996854 TGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTACTTCC
129 TACTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTACTTCC
* * * *
16996919 TTCCAATATAGGAAGACA-GAATCTGGAATTTTCGATCTACTTCACGCCAATACATGAAGACAAG
194 TACCAATATAAGAAGACAGGAA-CTGGAATCTTCGATCTACTTCACGCCAATACATGAAGAAAAG
16996983 ATCTACTT
258 ATCTACTT
*
16996991 TTTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTC-CTACC
1 TCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACC
16997055 AATATAGGAAGACAGGATATG-TGATCTTCAATCTACTTCACGCCAATACATGAAGACAAGATCT
66 AATATAGGAAGACAGGATATGCT-ATCTTCAATCTACTTCACGCCAATACATGAAGACAAGATCT
*
16997119 ACTTTTTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTACTTCCT
130 ACTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTACTTCCT
** *
16997184 ACCAATATAAGAAGACAGGAACTGTTATCTTCGATCTACTTCACGCCAATACATGAAGAAAATAT
195 ACCAATATAAGAAGACAGGAACTGGAATCTTCGATCTACTTCACGCCAATACATGAAGAAAAGAT
16997249 CTACTT
260 CTACTT
* *
16997255 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACC
1 TCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACC
* ** *
16997320 AATATAGGAAGACAGGATCTGCTATCTTCGGTCTACTTCACGCCAATATATGAAGACAAGATCT
66 AATATAGGAAGACAGGATATGCTATCTTCAATCTACTTCACGCCAATACATGAAGACAAGATCT
16997384 GCTGCTTTTT
Statistics
Matches: 347, Mismatches: 40, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
264 198 0.57
265 126 0.36
266 23 0.07
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (265 bp):
TCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACC
AATATAGGAAGACAGGATATGCTATCTTCAATCTACTTCACGCCAATACATGAAGACAAGATCTA
CTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTACTTCCTA
CCAATATAAGAAGACAGGAACTGGAATCTTCGATCTACTTCACGCCAATACATGAAGAAAAGATC
TACTT
Found at i:16997386 original size:44 final size:44
Alignment explanation
Indices: 16996611--16997386 Score: 692
Period size: 44 Copynumber: 17.6 Consensus size: 44
16996601 AGATCTGGAA
** * * *
16996611 ACCAATATAAAAAGACAAGATCTGCTATCTTTGATTTATTTCAC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * * * * *
16996655 GCCAATACATGAAGATAATATCTGTTTTCTTCGATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC
* * * *
16996700 ACCAGTATGGGAAGACCAGATCTGC-ATCTTCGATCCACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * *
16996742 TACCAATATAGGAAGATAGGATCTGTTATCTTCGATCTATTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * *
16996787 GCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCACC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCA-C
* * * * *
16996832 ACCAGTATGGGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC
*
16996877 ACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCTACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* ** *
16996919 TTCCAATATAGGAAGAC-AGAATCTGGAATTTTCGATCTACTTCAC
1 -ACCAATATAGGAAGACAAG-ATCTGCTATCTTCGATCTACTTCAC
* * * * * *
16996964 GCCAATACATGAAGACAAGATCTACTTTTTTCGATCTACTTCACC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCA-C
* *
16997009 ACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * *
16997051 TACCAATATAGGAAGACAGGATATG-TGATCTTCAATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCT-ATCTTCGATCTACTTCAC
* * * * * *
16997096 GCCAATACATGAAGACAAGATCTACTTTTTTCGATCTACTTCACC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCA-C
*
16997141 ACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCTACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * *
16997183 TACCAATATAAGAAGACAGGAACTGTTATCTTCGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* * * * * * * *
16997228 GCCAATACATGAAGAAAATATCTACTTTCTTCGATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-AC
* * * *
16997273 ACCAGTATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCGC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* *
16997316 TACCAATATAGGAAGACAGGATCTGCTATCTTCGGTCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
* *
16997361 GCCAATATATGAAGACAAGATCTGCT
1 ACCAATATAGGAAGACAAGATCTGCT
16997387 GCTTTTTAGC
Statistics
Matches: 585, Mismatches: 123, Indels: 48
0.77 0.16 0.06
Matches are distributed among these distances:
42 6 0.01
43 80 0.14
44 338 0.58
45 161 0.28
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.29
Consensus pattern (44 bp):
ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC
Found at i:17009409 original size:20 final size:19
Alignment explanation
Indices: 17009383--17009421 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
17009373 TAAATTAATA
17009383 AAAAAAATGAAAGAACTAAAT
1 AAAAAAAT-AAAGAA-TAAAT
17009404 AAAAAAATAAAGAATAAA
1 AAAAAAATAAAGAATAAA
17009422 AGGTACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 6 0.33
21 8 0.44
ACGTcount: A:0.77, C:0.03, G:0.08, T:0.13
Consensus pattern (19 bp):
AAAAAAATAAAGAATAAAT
Found at i:17014845 original size:16 final size:17
Alignment explanation
Indices: 17014821--17014854 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
17014811 ATAAGATTAA
17014821 ATATCGATTT-AATGTT
1 ATATCGATTTAAATGTT
*
17014837 ATATTGATTTAAATGTT
1 ATATCGATTTAAATGTT
17014854 A
1 A
17014855 ATATGTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.35, C:0.03, G:0.12, T:0.50
Consensus pattern (17 bp):
ATATCGATTTAAATGTT
Found at i:17015235 original size:27 final size:27
Alignment explanation
Indices: 17015204--17015260 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
17015194 AAGGAAAGGG
17015204 ATGGTAAATGTTCAAATGAACTATGTC
1 ATGGTAAATGTTCAAATGAACTATGTC
* *
17015231 ATGGTAAGTTTTCAAATGAACTATGTC
1 ATGGTAAATGTTCAAATGAACTATGTC
17015258 ATG
1 ATG
17015261 AAGCTCTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (27 bp):
ATGGTAAATGTTCAAATGAACTATGTC
Found at i:17015972 original size:13 final size:13
Alignment explanation
Indices: 17015954--17015988 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
17015944 TGGTTGTATG
17015954 GAATTGGTCTTTT
1 GAATTGGTCTTTT
17015967 GAATTGGTCTTTT
1 GAATTGGTCTTTT
17015980 GAATTGGTC
1 GAATTGGTC
17015989 ATTTCATGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.17, C:0.09, G:0.26, T:0.49
Consensus pattern (13 bp):
GAATTGGTCTTTT
Found at i:17018910 original size:13 final size:14
Alignment explanation
Indices: 17018894--17018923 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
17018884 AAAGCAATTG
17018894 AAAAA-GCATAACA
1 AAAAATGCATAACA
17018907 AAAAATGCATAACA
1 AAAAATGCATAACA
17018921 AAA
1 AAA
17018924 TAAAATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.70, C:0.13, G:0.07, T:0.10
Consensus pattern (14 bp):
AAAAATGCATAACA
Found at i:17018963 original size:32 final size:32
Alignment explanation
Indices: 17018905--17018994 Score: 96
Period size: 32 Copynumber: 2.8 Consensus size: 32
17018895 AAAAGCATAA
*
17018905 CAAAAAATGCATAACAAAATAAAATATATAAAT-
1 CAAAAAA--CATAAAAAAATAAAATATATAAATC
*
17018938 C-GAAAACATAAAAAATATATAAATATATAAATC
1 CAAAAAACATAAAAAA-ATA-AAATATATAAATC
17018971 CAAAAAACATAAAAATAA-AAAATA
1 CAAAAAACATAAAAA-AATAAAATA
17018995 AAAATAAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
30 8 0.16
31 3 0.06
32 21 0.43
33 3 0.06
34 13 0.27
35 1 0.02
ACGTcount: A:0.69, C:0.09, G:0.02, T:0.20
Consensus pattern (32 bp):
CAAAAAACATAAAAAAATAAAATATATAAATC
Found at i:17018995 original size:13 final size:14
Alignment explanation
Indices: 17018973--17019004 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
17018963 TATAAATCCA
17018973 AAAAACATAAAAAT
1 AAAAACATAAAAAT
17018987 AAAAA-ATAAAAAT
1 AAAAACATAAAAAT
17019000 AAAAA
1 AAAAA
17019005 TATGGTTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.12
Consensus pattern (14 bp):
AAAAACATAAAAAT
Found at i:17019605 original size:44 final size:46
Alignment explanation
Indices: 17019503--17019605 Score: 106
Period size: 44 Copynumber: 2.3 Consensus size: 46
17019493 AATGTCAAAT
*
17019503 TTCTTCTTCTCCTTAAAAAAAACCCCCCTAAATTAAACCCCAAATCAA
1 TTCTTCTTCTTCTTAAAAAAAA-CCCCCTAAATTAAACCCCAAATC-A
* * * *
17019551 TTATTC-TCTTCTT-AAAAAAA-CCCTTAAATTAAACTCCCCATTC-
1 TTCTTCTTCTTCTTAAAAAAAACCCCCTAAATTAAAC-CCCAAATCA
17019594 TTCTTCTTCTTC
1 TTCTTCTTCTTC
17019606 CTCATCAGTT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
43 5 0.11
44 18 0.38
45 6 0.13
46 7 0.15
47 6 0.13
48 5 0.11
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.36
Consensus pattern (46 bp):
TTCTTCTTCTTCTTAAAAAAAACCCCCTAAATTAAACCCCAAATCA
Found at i:17027061 original size:7 final size:7
Alignment explanation
Indices: 17027005--17027060 Score: 69
Period size: 7 Copynumber: 8.0 Consensus size: 7
17026995 TAAAAATAAT
17027005 AATTGAG
1 AATTGAG
17027012 AATTGAG
1 AATTGAG
17027019 AATTGAG
1 AATTGAG
17027026 AATTGAG
1 AATTGAG
*
17027033 AATTTAG
1 AATTGAG
*
17027040 GATTGA-
1 AATTGAG
17027046 AGATTGAG
1 A-ATTGAG
*
17027054 TATTGAG
1 AATTGAG
17027061 TTAAAAATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
7 42 1.00
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (7 bp):
AATTGAG
Found at i:17041977 original size:24 final size:24
Alignment explanation
Indices: 17041946--17042015 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 24
17041936 GATATGCTCT
*
17041946 TACGAGCTGTAAT-TGGTAA-TCTCA
1 TACGAGCTG-AATACGGTAAGT-TCA
17041970 TACGAGCTGAATAACGGTAAGTTCA
1 TACGAGCTGAAT-ACGGTAAGTTCA
17041995 TACGAGCTGAATATCGGTAAG
1 TACGAGCTGAATA-CGGTAAG
17042016 CTCTCTCGAG
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
23 3 0.07
24 10 0.24
25 27 0.66
26 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (24 bp):
TACGAGCTGAATACGGTAAGTTCA
Found at i:17042025 original size:25 final size:25
Alignment explanation
Indices: 17041967--17042015 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
17041957 ATTGGTAATC
17041967 TCATACGAGCTGAATAACGGTAAGT
1 TCATACGAGCTGAATAACGGTAAGT
*
17041992 TCATACGAGCTGAATATCGGTAAG
1 TCATACGAGCTGAATAACGGTAAG
17042016 CTCTCTCGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (25 bp):
TCATACGAGCTGAATAACGGTAAGT
Found at i:17044203 original size:11 final size:11
Alignment explanation
Indices: 17044187--17044213 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
17044177 TGCATATCTC
17044187 TATAAGCAGCT
1 TATAAGCAGCT
17044198 TATAAGCAGCT
1 TATAAGCAGCT
17044209 TATAA
1 TATAA
17044214 AGCACCTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (11 bp):
TATAAGCAGCT
Found at i:17045708 original size:313 final size:308
Alignment explanation
Indices: 17045090--17045687 Score: 822
Period size: 313 Copynumber: 1.9 Consensus size: 308
17045080 TATTTGTGTA
* * **
17045090 TAATAAAAATTAGTATTCGAGCTATTAATTTTTTATTACACTTCCAACAAGTGGTATCCGAGCTA
1 TAATAAAAATTAGTATTCAAGCTATTAATTTTTCATTACACTTCCAACAAGTAATATCCGAGCTA
* * *
17045155 GGTTTGTGTCAACGTCACAATGGTAAACATGATTCATAGATCCCGAAATTAACAAAGACAAAATA
66 GGTTCGTGTCAACGTCACAATGGCAAACATGATTCATAGATCCCAAAATTAACAAAGACAAAATA
* * * * * * *
17045220 TAGCAATTGGAGCACCCAGATGAAGGCTTTGCTCGGTTCTCAAGATTGTTGGGACGTTGTCAAAG
131 GAACAATTAGAACACCCAGATAAAGACTTTGCTCGATTCTCAAGATTGTTGGGACGTTGTCAAAG
* ** *
17045285 AAGGATATGTCAAGCCCTAAAATGTAGCTGCCAAAACAGCTTTGACAAACGAAGAAAAAAGAGTA
196 AAGGATATGTCAAGCCCTAAAATGCAGCTGCCAAAACAGC-TTGACAAAAAAAGAAAAAAAAGTA
* *** * *
17045350 TTGAAATAAGCTCGTAAAAAGGATATTTGTATTATGTGTTATTTTTATG
260 TTGAAAAAAGCTCGTAAAAAGGATAAGGGCATTATCTGTTATTTTTATG
* *
17045399 TAATAAAAATTAGTATTTAAGCTATTAATTTTTCATTACGCTTCCAACAAGTAATATCCGAGCTA
1 TAATAAAAATTAGTATTCAAGCTATTAATTTTTCATTACACTTCCAACAAGTAATATCCGAGCTA
17045464 GGTTCGTGTCAACGTCACAATGGCAAACATGATTCAATCGTAGATCCCAAAATTAACAAAGACAA
66 GGTTCGTGTCAACGTCACAATGGCAAACATGATTC-A---TAGATCCCAAAATTAACAAAGACAA
* * *
17045529 ATTAGAACAATTAGAACATCCGGATAAAGACTTTGCTCGATTCTCAAGATTGTTGGGACGTTGTC
127 AATAGAACAATTAGAACACCCAGATAAAGACTTTGCTCGATTCTCAAGATTGTTGGGACGTTGTC
* * ***
17045594 AAAGAATGATATGTCAA-CCCTTAAGATGCAGCTGCCAAAGTGGC-TGACAAAAAAAGAAAAAAA
192 AAAGAAGGATATGTCAAGCCC-TAAAATGCAGCTGCCAAAACAGCTTGACAAAAAAAGAAAAAAA
17045657 AGTATTGAAAAAAGCTCGTAAAAAGGATAAG
256 AGTATTGAAAAAAGCTCGTAAAAAGGATAAG
17045688 AGGGCGTTGA
Statistics
Matches: 253, Mismatches: 31, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
309 92 0.36
310 1 0.00
311 44 0.17
312 3 0.01
313 113 0.45
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (308 bp):
TAATAAAAATTAGTATTCAAGCTATTAATTTTTCATTACACTTCCAACAAGTAATATCCGAGCTA
GGTTCGTGTCAACGTCACAATGGCAAACATGATTCATAGATCCCAAAATTAACAAAGACAAAATA
GAACAATTAGAACACCCAGATAAAGACTTTGCTCGATTCTCAAGATTGTTGGGACGTTGTCAAAG
AAGGATATGTCAAGCCCTAAAATGCAGCTGCCAAAACAGCTTGACAAAAAAAGAAAAAAAAGTAT
TGAAAAAAGCTCGTAAAAAGGATAAGGGCATTATCTGTTATTTTTATG
Found at i:17046206 original size:12 final size:12
Alignment explanation
Indices: 17046189--17046214 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17046179 GGTATAAGCA
17046189 ATCGTGGAGGAT
1 ATCGTGGAGGAT
17046201 ATCGTGGAGGAT
1 ATCGTGGAGGAT
17046213 AT
1 AT
17046215 AGAGGTGGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.08, G:0.38, T:0.27
Consensus pattern (12 bp):
ATCGTGGAGGAT
Found at i:17048510 original size:21 final size:21
Alignment explanation
Indices: 17048485--17048524 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
17048475 GAAGATAAAG
*
17048485 TATATCGCTTGAAGAAAGCTT
1 TATATCGATTGAAGAAAGCTT
* *
17048506 TATATGGATTGAAGCAAGC
1 TATATCGATTGAAGAAAGC
17048525 CTCAAGAGCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (21 bp):
TATATCGATTGAAGAAAGCTT
Found at i:17056307 original size:13 final size:13
Alignment explanation
Indices: 17056289--17056314 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17056279 CATATTCCCA
17056289 TAATTTTATGTAT
1 TAATTTTATGTAT
17056302 TAATTTTATGTAT
1 TAATTTTATGTAT
17056315 ATACATACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TAATTTTATGTAT
Found at i:17056553 original size:21 final size:18
Alignment explanation
Indices: 17056522--17056561 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
17056512 TTGTTTTAGT
17056522 TCATTTTTTATTCATATTA
1 TCATTTTTTATTC-TATTA
17056541 TCATGTTTATTATTCTATTA
1 TCAT-TTT-TTATTCTATTA
17056561 T
1 T
17056562 GCATATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 9 0.47
21 6 0.32
ACGTcount: A:0.25, C:0.10, G:0.03, T:0.62
Consensus pattern (18 bp):
TCATTTTTTATTCTATTA
Found at i:17056805 original size:110 final size:109
Alignment explanation
Indices: 17056607--17056917 Score: 421
Period size: 110 Copynumber: 2.9 Consensus size: 109
17056597 TTTCTAATTG
*
17056607 AGGCAATATTTAGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
1 AGGCAATATTTTGCGTTT-GGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
* * *
17056672 TCGTTCAACCAAATGGCTTAATATCCTTTTAAAATTTTTTAAAATA
65 TCGTTCAACCAAATGGCTAAATATCCTTTTAAAA-ATTCTAAAATA
* * *
17056718 AGGCAATATTTTGCGTTTGGAAATTAGAGAAAACATGTCCAAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATATTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
* *
17056783 CATTCAACCAAATGGCTAAATATCCTTTTAAAAATTCTCAAATA
66 CGTTCAACCAAATGGCTAAATATCCTTTTAAAAATTCTAAAATA
* * * * *
17056827 AGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAATGTGCTGGGTTTCGA--TTTCT
1 AGGCAATATTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
* * * *
17056889 CGTTTAACCAAATAGCCATATATCCTTTT
66 CGTTCAACCAAATGGCTAAATATCCTTTT
17056918 GAATTTCAAT
Statistics
Matches: 178, Mismatches: 22, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
106 29 0.16
108 22 0.12
109 35 0.20
110 75 0.42
111 17 0.10
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (109 bp):
AGGCAATATTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
CGTTCAACCAAATGGCTAAATATCCTTTTAAAAATTCTAAAATA
Found at i:17060987 original size:23 final size:23
Alignment explanation
Indices: 17060961--17061016 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 23
17060951 CAAAATAAAA
17060961 AAAAGAAGAAAAA-AATCAAAGTC
1 AAAAGAA-AAAAACAATCAAAGTC
17060984 AAAAGAAAAAAATCAATCAAAGTC
1 AAAAGAAAAAAA-CAATCAAAGTC
*
17061008 AAAATAAAA
1 AAAAGAAAA
17061017 TATGAAAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 5 0.17
23 7 0.23
24 18 0.60
ACGTcount: A:0.71, C:0.09, G:0.09, T:0.11
Consensus pattern (23 bp):
AAAAGAAAAAAACAATCAAAGTC
Found at i:17061901 original size:13 final size:13
Alignment explanation
Indices: 17061883--17061908 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17061873 AGTCGGGGAA
17061883 AAAAATGAAAATG
1 AAAAATGAAAATG
17061896 AAAAATGAAAATG
1 AAAAATGAAAATG
17061909 GAGAGGCTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAAATGAAAATG
Found at i:17063246 original size:87 final size:87
Alignment explanation
Indices: 17063093--17063838 Score: 1111
Period size: 87 Copynumber: 8.6 Consensus size: 87
17063083 AGATCAGTGA
* * *
17063093 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTCAAGATAGTAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAATGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
17063158 CTTTCTGCATTGACAGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* * * *
17063180 AGGTC-AGAAACAAAGCCTTACCTCCATCAGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTG
1 AGATCGA-AAACAAAGCCTTGCCTCCATCGGTTGCAATGGAGCTGGTTAAAGATAGCAGATCTTG
17063244 CCTTCCTGCATTAACAGCGAAGC
65 CCTTCCTGCATTAACAGCGAAGC
*
17063267 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAATGGAGCTGGTTAAAGATAGCAGATCTTGT
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAATGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
17063332 CTTCTTGCATTAACAGCGAAAC
66 CTTCCTGCATTAACAGCGAAGC
* *
17063354 ATATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAATGGAGCTGGTTAAAGATAGCAGATCTTGT
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAATGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
17063419 CTTCTTGCATTAACAGCGAAAC
66 CTTCCTGCATTAACAGCGAAGC
* *
17063441 ATATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAATGGAGCTGGTTAAAGATAGTAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAATGGAGCTGGTTAAAGATAGCAGATCTTGC
* * *
17063506 CTTTCTGTATTGACAGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* * *
17063528 AGATC-AGAAACAAAGCCTTGCCTCCATCAGTTCCAGTGGAGCTGGTTAAAGATAGCAGATCTTG
1 AGATCGA-AAACAAAGCCTTGCCTCCATCGGTTGCAATGGAGCTGGTTAAAGATAGCAGATCTTG
*
17063592 CCTTCCTGCATTAACAGTGAAGC
65 CCTTCCTGCATTAACAGCGAAGC
*
17063615 AGATCGAAAACAAAGCATTGCCTCCATCGGTTGCAATGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAATGGAGCTGGTTAAAGATAGCAGATCTTGC
*
17063680 CTTCCTACATTAACAGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* * *
17063702 AGATCGAAAACAAAGCCTTGCATCCATCGGTTGCAATAGAGCTGGTTAAAGATAACAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAATGGAGCTGGTTAAAGATAGCAGATCTTGC
*
17063767 CTTCCTGCGTTAACAGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* * * * * *
17063789 AGATC-AAGAACAAAGTCTTGCCTCTATCGATTACAGTGGAGCGGGTTAAA
1 AGATCGAA-AACAAAGCCTTGCCTCCATCGGTTGCAATGGAGCTGGTTAAA
17063839 ATAAAAGATC
Statistics
Matches: 603, Mismatches: 51, Indels: 10
0.91 0.08 0.02
Matches are distributed among these distances:
86 4 0.01
87 597 0.99
88 2 0.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAATGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTGCATTAACAGCGAAGC
Found at i:17063952 original size:44 final size:44
Alignment explanation
Indices: 17063884--17064114 Score: 196
Period size: 44 Copynumber: 5.0 Consensus size: 44
17063874 TAGATCACAT
*
17063884 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
* * * *
17063928 CAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTACAGTGGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
* * ** * *
17063972 CGGGTT-AAAATAAAAGATCTTATCTCTCTGA-AGTTACAGCAGAGTAG
1 CAGATTGAAGCTAGAA-ATCTTATCTCCCTGAGA-TTACAGC-G-G-AG
*
17064019 ATCACATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAG
1 -------CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
* * * *
17064070 CAGATTGAAGCTAGTAATCCTATCTCCCTAAGATTACAGTGGAG
1 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
17064114 C
1 C
17064115 GGGTTAAAAT
Statistics
Matches: 146, Mismatches: 27, Indels: 28
0.73 0.13 0.14
Matches are distributed among these distances:
43 6 0.04
44 101 0.69
45 1 0.01
46 1 0.01
47 2 0.01
51 2 0.01
52 1 0.01
53 1 0.01
54 25 0.17
55 6 0.04
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (44 bp):
CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
Found at i:17063985 original size:142 final size:142
Alignment explanation
Indices: 17063817--17064171 Score: 674
Period size: 142 Copynumber: 2.5 Consensus size: 142
17063807 TGCCTCTATC
17063817 GATTACAGTGGAGCGGGTTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCAC
1 GATTACAGTGGAGCGGGTTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCAC
17063882 ATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
66 ATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
17063947 CTATCTCCCTAA
131 CTATCTCCCTAA
17063959 GATTACAGTGGAGCGGGTTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCAC
1 GATTACAGTGGAGCGGGTTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCAC
17064024 ATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
66 ATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
17064089 CTATCTCCCTAA
131 CTATCTCCCTAA
* * * *
17064101 GATTACAGTGGAGCGGGTTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGC
1 GATTACAGTGGAGCGGGTTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCAC
17064166 ATCAGA
66 ATCAGA
17064172 CCTTATTCCC
Statistics
Matches: 209, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
142 209 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (142 bp):
GATTACAGTGGAGCGGGTTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCAC
ATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
CTATCTCCCTAA
Found at i:17066135 original size:13 final size:13
Alignment explanation
Indices: 17066117--17066142 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17066107 CTTATTCCCA
17066117 TAATTTTATGTAT
1 TAATTTTATGTAT
17066130 TAATTTTATGTAT
1 TAATTTTATGTAT
17066143 ATACATACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TAATTTTATGTAT
Found at i:17066366 original size:21 final size:18
Alignment explanation
Indices: 17066335--17066374 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
17066325 TTGTTTTAGT
17066335 TCATTTTTTATTCATATTA
1 TCATTTTTTATTC-TATTA
17066354 TCATGTTTATTATTCTATTA
1 TCAT-TTT-TTATTCTATTA
17066374 T
1 T
17066375 GCATATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 9 0.47
21 6 0.32
ACGTcount: A:0.25, C:0.10, G:0.03, T:0.62
Consensus pattern (18 bp):
TCATTTTTTATTCTATTA
Found at i:17066618 original size:110 final size:109
Alignment explanation
Indices: 17066420--17066730 Score: 430
Period size: 110 Copynumber: 2.9 Consensus size: 109
17066410 TTTCTAATTG
* * *
17066420 AGGCAATATTTAGCGTTTGGGAAATTCGAGAAAACATGTCCTAAGGTGCTGGGTGTCGATTTTTC
1 AGGCAATGTTTTGCGTTT-GGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
* *
17066485 TCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTTAAAATA
65 TCGTTCAACCAAATGGCTAAATATCCTTTTAAAAA-TTCTAAAATA
*
17066531 AGGCAATGTTTTGCGTTTGGAAATTAGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
* *
17066596 CATTCAACCAAATGGCTAAATATCCTTTTAAAAATTCTCAAATA
66 CGTTCAACCAAATGGCTAAATATCCTTTTAAAAATTCTAAAATA
* * * * * *
17066640 AGGCAATGTTTTGAGTTTGGAAATTCGAG-GAACGTGCCCTAATGTGTTGGGTTTCGA--TTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
* * *
17066702 CGTTTAACCAAATAGCCAAATATCCTTTT
66 CGTTCAACCAAATGGCTAAATATCCTTTT
17066731 GAATTTCAAT
Statistics
Matches: 181, Mismatches: 19, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
106 30 0.17
108 23 0.13
109 35 0.19
110 77 0.43
111 16 0.09
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.35
Consensus pattern (109 bp):
AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
CGTTCAACCAAATGGCTAAATATCCTTTTAAAAATTCTAAAATA
Found at i:17072741 original size:174 final size:173
Alignment explanation
Indices: 17072446--17072791 Score: 638
Period size: 174 Copynumber: 2.0 Consensus size: 173
17072436 AATATTTTTT
* *
17072446 GAATAGTTATAATTCTTTTTTAAAAAATCAAATGATATAACTTTTGACCAATGACCAAAAGTTTT
1 GAATAATTATAATTCTTTTTTAAAAAATCAAATGATATAACTTTTGACCAATGACCAAAAGATTT
17072511 ACTTTTTGATTAATTACACCCATTCATTTATAGTTATTGGGATACTATAAATATTTGAAAATGTT
66 ACTTTTTGATTAATTACACCCATTCATTTATAGTTATTGGGATACTATAAATATTTGAAAATGTT
17072576 CAAACACAATTTTGGGCGTATCGAGGGTGCTAATCCTTTCTCA
131 CAAACACAATTTTGGGCGTATCGAGGGTGCTAATCCTTTCTCA
* *
17072619 GAATAATTATAATTCTTTTTTAAAAAATTAAATGATATAACTTTTGACCAATGACTAAAAGATTT
1 GAATAATTATAATTCTTTTTTAAAAAATCAAATGATATAACTTTTGACCAATGACCAAAAGATTT
17072684 ATCTTTTTGATTAATTACACCCATTCATTTATAGTTATTGGGATACTATAAATATTTGAAAATGT
66 A-CTTTTTGATTAATTACACCCATTCATTTATAGTTATTGGGATACTATAAATATTTGAAAATGT
*
17072749 TCAAACACAATTTTGGGCGTATCGAGGGTGCTAATCGTTTCTC
130 TCAAACACAATTTTGGGCGTATCGAGGGTGCTAATCCTTTCTC
17072792 GTGCGTAACG
Statistics
Matches: 167, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
173 62 0.37
174 105 0.63
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (173 bp):
GAATAATTATAATTCTTTTTTAAAAAATCAAATGATATAACTTTTGACCAATGACCAAAAGATTT
ACTTTTTGATTAATTACACCCATTCATTTATAGTTATTGGGATACTATAAATATTTGAAAATGTT
CAAACACAATTTTGGGCGTATCGAGGGTGCTAATCCTTTCTCA
Found at i:17083699 original size:11 final size:11
Alignment explanation
Indices: 17083685--17083734 Score: 82
Period size: 11 Copynumber: 4.5 Consensus size: 11
17083675 TAGCAATGCC
*
17083685 TATTTTAATCC
1 TATTTTAATCA
*
17083696 TATTTTAATTA
1 TATTTTAATCA
17083707 TATTTTAATCA
1 TATTTTAATCA
17083718 TATTTTAATCA
1 TATTTTAATCA
17083729 TATTTT
1 TATTTT
17083735 TTTAAATAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 36 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTTAATCA
Found at i:17086169 original size:3 final size:3
Alignment explanation
Indices: 17086161--17086321 Score: 304
Period size: 3 Copynumber: 53.7 Consensus size: 3
17086151 GAGAATGCTT
* *
17086161 ATA ATA ATA ATA ATG CTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
17086209 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
17086257 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
17086305 ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA AT
17086322 TTATTATTAT
Statistics
Matches: 154, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 154 1.00
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:17090814 original size:20 final size:20
Alignment explanation
Indices: 17090777--17090819 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
17090767 CTTTTAAAGG
** *
17090777 ATAATATAATTTATTTAAAA
1 ATAATATAAAATAATTAAAA
*
17090797 ATAATATAAAATAATTAATA
1 ATAATATAAAATAATTAAAA
17090817 ATA
1 ATA
17090820 TTCTACTTGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
ATAATATAAAATAATTAAAA
Found at i:17093071 original size:22 final size:20
Alignment explanation
Indices: 17093037--17093077 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
17093027 AATTGTTGAT
*
17093037 AAATTGATGAATTAGGCTTG
1 AAATTGATGAATTAAGCTTG
17093057 AAATTGATAGAAATTAAGCTT
1 AAATTGAT-G-AATTAAGCTT
17093078 AGATTATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 1 0.06
22 9 0.50
ACGTcount: A:0.41, C:0.05, G:0.20, T:0.34
Consensus pattern (20 bp):
AAATTGATGAATTAAGCTTG
Found at i:17094420 original size:43 final size:43
Alignment explanation
Indices: 17094372--17094555 Score: 208
Period size: 43 Copynumber: 4.1 Consensus size: 43
17094362 AGAAATAAAT
* *
17094372 GCCGCTATAGATCATGACCTTTAGCGGCGTTTTTCCCACAAAC
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACAAAC
* * * *
17094415 GCCGCTATAGATCAGTACCTTTAGTGGTTAGTGGTGCTTTT-ACACAAAC
1 GCCGCTATAGATCAGGACC-----T--TTAGCGGCGCTTTTCCCACAAAC
* *
17094464 GCCGCTATAGCTCAGGACCTTTAGCGACGCTTTTCCCACAAAC
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACAAAC
* *
17094507 GCCGCTATAGCTCAGGACCTTTAGCGGCGCTTTTCCCACAAGC
1 GCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACAAAC
17094550 GCCGCT
1 GCCGCT
17094556 GTCTGCTTTC
Statistics
Matches: 119, Mismatches: 14, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
42 11 0.09
43 71 0.60
44 1 0.01
48 1 0.01
49 24 0.20
50 11 0.09
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (43 bp):
GCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACAAAC
Found at i:17095036 original size:43 final size:43
Alignment explanation
Indices: 17094975--17095077 Score: 179
Period size: 43 Copynumber: 2.4 Consensus size: 43
17094965 ATGGGTCCCC
*
17094975 CTATAGATTAAGACCTTTAACGGCGCTTTTTCCACAAACGACG
1 CTATAGATCAAGACCTTTAACGGCGCTTTTTCCACAAACGACG
* *
17095018 CTATAGATCAAGACCTTTAGCGGCGCTTTTTCCACAAACGCCG
1 CTATAGATCAAGACCTTTAACGGCGCTTTTTCCACAAACGACG
17095061 CTATAGATCAAGACCTT
1 CTATAGATCAAGACCTT
17095078 AGTATTAAAT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (43 bp):
CTATAGATCAAGACCTTTAACGGCGCTTTTTCCACAAACGACG
Found at i:17095115 original size:16 final size:16
Alignment explanation
Indices: 17095094--17095127 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
17095084 AAATATTAAA
*
17095094 TATTAAAATCAAACAT
1 TATTAAAATCAAAAAT
*
17095110 TATTAATATCAAAAAT
1 TATTAAAATCAAAAAT
17095126 TA
1 TA
17095128 ATTAGTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (16 bp):
TATTAAAATCAAAAAT
Found at i:17096289 original size:191 final size:192
Alignment explanation
Indices: 17096070--17096492 Score: 471
Period size: 192 Copynumber: 2.2 Consensus size: 192
17096060 AAAGGTCCCA
* * * *
17096070 AACTTGGTCTATTATGTTCATTAACATCATA-A-AAAATCATCAATTACATCCTAATAACAATTT
1 AACTTAGTCTATTATATTCATTAACATCA-ACATAAAAACATCAATTACATCCTAATAACAATTC
* * * * * * * *
17096133 CAACTCCAAAGTT-GACTAAAGAAGCTTTGCAGGATATGA-AAACACAAGTGCATTTCCATTCAA
65 CAACCCCAAAGTTCAACTAAA-AAACATTCCAGGATA-CACAAACACAAATGCATTTCCATTAAA
** * * *
17096196 GTAAATTGTTGTGTTGTAATCACAAAG-TTCAAATGAAAACCATGACTTGAACCCATAAAAAATT
128 GT-AATAATAGTGTTGTAATCACAAAGCTCCAAATGAAAACCATGACTTAAACCCATAAAAAATT
17096260 C
192 C
* *
17096261 AACTTAGTCTATTGTATTCATTAACATCAACATAAAAACATCAATTACTTCCTAATAACAATTCC
1 AACTTAGTCTATTATATTCATTAACATCAACATAAAAACATCAATTACATCCTAATAACAATTCC
* **
17096326 AACCCCAAAGTTCAATTAAAAAACATTCCAGGATACACAAATGCAAATGCATTTCCATTAAAGTA
66 AACCCCAAAGTTCAACTAAAAAACATTCCAGGATACACAAACACAAATGCATTTCCATTAAAGTA
* * * *
17096391 ATAATAGTGTTTTAATCACAAAGCTCCAAATGAAAACCATGACTTAAACCCATTATAGATTAC
131 ATAATAGTGTTGTAATCACAAAGCTCCAAATGAAAACCATGACTTAAACCCATAAAAAATT-C
* ** *
17096454 AAACTTAGTCCA-TATGCTCATTAACATGAACATTAAAAA
1 -AACTTAGTCTATTATATTCATTAACATCAACA-TAAAAA
17096493 ACAATTCTAA
Statistics
Matches: 193, Mismatches: 31, Indels: 13
0.81 0.13 0.05
Matches are distributed among these distances:
190 1 0.01
191 48 0.25
192 106 0.55
193 22 0.11
194 16 0.08
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.29
Consensus pattern (192 bp):
AACTTAGTCTATTATATTCATTAACATCAACATAAAAACATCAATTACATCCTAATAACAATTCC
AACCCCAAAGTTCAACTAAAAAACATTCCAGGATACACAAACACAAATGCATTTCCATTAAAGTA
ATAATAGTGTTGTAATCACAAAGCTCCAAATGAAAACCATGACTTAAACCCATAAAAAATTC
Found at i:17096971 original size:18 final size:18
Alignment explanation
Indices: 17096948--17096983 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
17096938 CTGCTGTTGA
17096948 AGATCTGGAACAAAATCC
1 AGATCTGGAACAAAATCC
17096966 AGATCTGGAACAAAATCC
1 AGATCTGGAACAAAATCC
17096984 GACGTAGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.22, G:0.17, T:0.17
Consensus pattern (18 bp):
AGATCTGGAACAAAATCC
Found at i:17098587 original size:20 final size:20
Alignment explanation
Indices: 17098562--17098601 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
17098552 AAGTATGGTT
17098562 AGTTTAGCAGTTAGCAGTAA
1 AGTTTAGCAGTTAGCAGTAA
17098582 AGTTTAGCAGTTAGCAGTAA
1 AGTTTAGCAGTTAGCAGTAA
17098602 GTGCAGTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (20 bp):
AGTTTAGCAGTTAGCAGTAA
Found at i:17103088 original size:20 final size:20
Alignment explanation
Indices: 17103063--17103102 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
17103053 AAGTATGGTT
*
17103063 AGTTTAGTAGTTAGCAGTAA
1 AGTTTAGCAGTTAGCAGTAA
17103083 AGTTTAGCAGTTAGCAGTAA
1 AGTTTAGCAGTTAGCAGTAA
17103103 GTGCAGTCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.07, G:0.25, T:0.33
Consensus pattern (20 bp):
AGTTTAGCAGTTAGCAGTAA
Found at i:17103113 original size:20 final size:20
Alignment explanation
Indices: 17103071--17103115 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
17103061 TTAGTTTAGT
**
17103071 AGTTAGCAGTAAAGTTTAGC
1 AGTTAGCAGTAAAGTGCAGC
17103091 AGTTAGCAGT-AAGTGCAGTC
1 AGTTAGCAGTAAAGTGCAG-C
17103111 AGTTA
1 AGTTA
17103116 AACTGTTAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.29
Consensus pattern (20 bp):
AGTTAGCAGTAAAGTGCAGC
Found at i:17108375 original size:9 final size:9
Alignment explanation
Indices: 17108353--17108391 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
17108343 TATAAAATTT
*
17108353 ATTATTCGA
1 ATTATTTGA
*
17108362 GTTATTTGA
1 ATTATTTGA
17108371 ATTATTTGA
1 ATTATTTGA
*
17108380 GTTATTTGA
1 ATTATTTGA
17108389 ATT
1 ATT
17108392 GCAATATTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.28, C:0.03, G:0.15, T:0.54
Consensus pattern (9 bp):
ATTATTTGA
Found at i:17108376 original size:18 final size:18
Alignment explanation
Indices: 17108353--17108391 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
17108343 TATAAAATTT
17108353 ATTATTCGAGTTATTTGA
1 ATTATTCGAGTTATTTGA
*
17108371 ATTATTTGAGTTATTTGA
1 ATTATTCGAGTTATTTGA
17108389 ATT
1 ATT
17108392 GCAATATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.03, G:0.15, T:0.54
Consensus pattern (18 bp):
ATTATTCGAGTTATTTGA
Found at i:17109877 original size:19 final size:19
Alignment explanation
Indices: 17109853--17109899 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
17109843 GTGATTTCAA
*
17109853 CTTTTATTTCTCTGTTTCT
1 CTTTTATTTCTCAGTTTCT
*
17109872 CTTTTATTTTTCAGTTTCT
1 CTTTTATTTCTCAGTTTCT
17109891 -TTTGTATTT
1 CTTT-TATTT
17109900 ATTTCGACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 3 0.12
19 22 0.88
ACGTcount: A:0.09, C:0.15, G:0.06, T:0.70
Consensus pattern (19 bp):
CTTTTATTTCTCAGTTTCT
Found at i:17110122 original size:26 final size:26
Alignment explanation
Indices: 17110087--17110136 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
17110077 TGAACCTCCA
17110087 GCCGCCACACACGGTGGCGCTACGAC
1 GCCGCCACACACGGTGGCGCTACGAC
17110113 GCCGCCACACACGGTGGCGCTACG
1 GCCGCCACACACGGTGGCGCTACG
17110137 GCGGAGGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.18, C:0.42, G:0.32, T:0.08
Consensus pattern (26 bp):
GCCGCCACACACGGTGGCGCTACGAC
Found at i:17110681 original size:3 final size:3
Alignment explanation
Indices: 17110675--17110713 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
17110665 CTTTTAATAA
* *
17110675 TAT TAT TAT TAT TGT TAT TAT TAT TAT TAT CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
17110714 AATTGCCCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:17110912 original size:39 final size:39
Alignment explanation
Indices: 17110850--17110927 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 39
17110840 TATATGTGTT
* * *
17110850 CTTTATATTTTATGATTCATACATATATCTATATATATA
1 CTTTATATTTTATGATACATACATACATATATATATATA
* ** *
17110889 CTTTTTATTTTATGATAGTTACATACATATATATGTATA
1 CTTTATATTTTATGATACATACATACATATATATATATA
17110928 TGCTTACTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (39 bp):
CTTTATATTTTATGATACATACATACATATATATATATA
Found at i:17111425 original size:110 final size:110
Alignment explanation
Indices: 17111227--17111553 Score: 478
Period size: 110 Copynumber: 3.0 Consensus size: 110
17111217 TTATCAAAAA
* ** * *
17111227 TAAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTTGAGAAAAAATGTCCTAAGGTAC
1 TAAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGC
*
17111292 TGGGTGTCGATTTTTCTCATTCAACCAAATGACTAAATATTCTTT
66 TGGGTGTCGATTTTTCTCATTCAACCAAATGACTAAATATCCTTT
* *
17111337 TAAAAATTTTCAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGC
1 TAAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGC
* *
17111402 TGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTT
66 TGGGTGTCGATTTTTCTCATTCAACCAAATGACTAAATATCCTTT
** * *
17111447 TAAAATTTTTAAAATAAGGCAATGTTTTATGTTT-GAAAATTCGAGAAAACGTACCCTAAGGTGC
1 TAAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGC
* * *
17111511 TGGGTGTCGATTTTTCTCATTTAACCGAAT-AGCCAAATATCCT
66 TGGGTGTCGATTTTTCTCATTCAACCAAATGA-CTAAATATCCT
17111554 CTTGAATTTC
Statistics
Matches: 195, Mismatches: 21, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
109 65 0.33
110 130 0.67
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.35
Consensus pattern (110 bp):
TAAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGC
TGGGTGTCGATTTTTCTCATTCAACCAAATGACTAAATATCCTTT
Found at i:17114908 original size:6 final size:6
Alignment explanation
Indices: 17114899--17114966 Score: 52
Period size: 6 Copynumber: 11.7 Consensus size: 6
17114889 AAGAAAAAGA
* * * *
17114899 AAAATC AAAATC AAAGTC AAAATG AAAATG AAAAT- GAAA-- AAAATC
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
* *
17114944 AAAAATC AAAATA AAAAAC AAAA
1 -AAAATC AAAATC AAAATC AAAA
17114967 AAAAAGAGAA
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
4 3 0.06
5 3 0.06
6 39 0.76
7 6 0.12
ACGTcount: A:0.72, C:0.09, G:0.06, T:0.13
Consensus pattern (6 bp):
AAAATC
Found at i:17115957 original size:10 final size:10
Alignment explanation
Indices: 17115942--17115979 Score: 67
Period size: 10 Copynumber: 3.7 Consensus size: 10
17115932 CTCTTTGAGT
17115942 AAAAAAAACA
1 AAAAAAAACA
17115952 AAAAAAAACA
1 AAAAAAAACA
17115962 ACAAAAAAACA
1 A-AAAAAAACA
17115973 AAAAAAA
1 AAAAAAA
17115980 TGAAAATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 17 0.63
11 10 0.37
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:17115958 original size:11 final size:11
Alignment explanation
Indices: 17115942--17115979 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
17115932 CTCTTTGAGT
17115942 AAAAAAAAC-A
1 AAAAAAAACAA
17115952 AAAAAAAACAA
1 AAAAAAAACAA
*
17115963 CAAAAAAACAA
1 AAAAAAAACAA
17115974 AAAAAA
1 AAAAAA
17115980 TGAAAATGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:17115964 original size:13 final size:12
Alignment explanation
Indices: 17115942--17115979 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
17115932 CTCTTTGAGT
17115942 AAAAAAAACAAA
1 AAAAAAAACAAA
17115954 AAAAAACAACAAA
1 AAAAAA-AACAAA
17115967 AAAACAAAA-AAA
1 AAAA-AAAACAAA
17115979 A
1 A
17115980 TGAAAATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 10 0.42
13 12 0.50
14 2 0.08
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAACAAA
Found at i:17117485 original size:100 final size:100
Alignment explanation
Indices: 17117292--17117473 Score: 260
Period size: 100 Copynumber: 1.8 Consensus size: 100
17117282 CTTTACTTCC
* *
17117292 CAGGCGGTGCAGTAAAAAAGATTAAAGCCACAACGGTGAATATTGCCTCCCTGACATTGCGATTA
1 CAGGCGGTGCAGTAAAAAAGATTAAAACCACAACGGTGAATATTGCCTCCCTGACATTACGATTA
*
17117357 AAAAGATTAAAGCTACAGCAGCGAATCTTACCTCT
66 AAAAGATTAAAGCCACAGCAGCGAATCTTACCTCT
** * * *
17117392 CAGGCGGTGCAGTGGAACAGATTAAAACCACATCGGTGAATCTTGCCTCCCCT-ACATTAC-AGT
1 CAGGCGGTGCAGTAAAAAAGATTAAAACCACAACGGTGAATATTGCCT-CCCTGACATTACGA-T
17117455 TAAAAAGATTAAAGCCACA
64 TAAAAAGATTAAAGCCACA
17117474 TCGGTGAATC
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
99 1 0.01
100 67 0.93
101 4 0.06
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (100 bp):
CAGGCGGTGCAGTAAAAAAGATTAAAACCACAACGGTGAATATTGCCTCCCTGACATTACGATTA
AAAAGATTAAAGCCACAGCAGCGAATCTTACCTCT
Found at i:17117507 original size:25 final size:25
Alignment explanation
Indices: 17117461--17117510 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
17117451 CAGTTAAAAA
* * *
17117461 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
17117486 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
17117511 ACTCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:17117633 original size:44 final size:42
Alignment explanation
Indices: 17117578--17118330 Score: 385
Period size: 44 Copynumber: 17.6 Consensus size: 42
17117568 CCCAAAATCC
*
17117578 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCT
1 TATCTCTCTGAAGTTGCAGTGGAGCGGA-TAAAA-CACAGATCT
* * *
17117622 TATCTCTCTGAAGTTGCAGTAGAGCAGG-TCACATC-CAG-TCT
1 TATCTCTCTGAAGTTGCAGTGGAGC-GGAT-AAAACACAGATCT
* * * * *
17117663 TATCTCCCTGAA-TTGCAGTGGAGCAGACGAAAGAAATCA-ATCC
1 TATCTCTCTGAAGTTGCAGTGGAGCGGA-TAAA-ACA-CAGATCT
17117706 TATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCT
1 TATCTCTCTGAAGTTGCAGTGGAGCGGA-TAAAA-CACAGATCT
* * * * *
17117750 TATCTCTCTAAAGTTGCAATAGAGCAGG-TCACATC-CAG-TCT
1 TATCTCTCTGAAGTTGCAGTGGAGC-GGAT-AAAACACAGATCT
* * * * *
17117791 TATCTCCCTGAA-TTGCAGTGGAGCAGACGAAAGAAATCA-ATCC
1 TATCTCTCTGAAGTTGCAGTGGAGCGGA-TAAA-ACA-CAGATCT
*
17117834 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCT
1 TATCTCTCTGAAGTTGCAGTGGAGCGGA-TAAAA-CACAGATCT
* * * * *
17117878 TATCTCTCTAAAGTTGCAATAGAGCAGG-TCACATC-CAG-TCT
1 TATCTCTCTGAAGTTGCAGTGGAGC-GGAT-AAAACACAGATCT
* * * * * * *
17117919 TATTTCCCTGAAGTTGTAGTGGAGCAGACAACAGAAATCA-ATCC
1 TATCTCTCTGAAGTTGCAGTGGAGCGGATAA-A-ACA-CAGATCT
* ** *
17117963 TATCTCCCTGAAGTTGCAAAGGAGCGGATTAAAACCCTAGATCT
1 TATCTCTCTGAAGTTGCAGTGGAGCGGA-TAAAACAC-AGATCT
* * * * * * *
17118007 TATCTCTCTAAAGTTGCAATAGAGCAGATCACATACAG-TCT
1 TATCTCTCTGAAGTTGCAGTGGAGCGGATAAAACACAGATCT
* * * * *
17118048 TATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATCA-ATCC
1 TATCTCTCTGAAGTTGCAGTGGAGCGGA-TAAA-ACA-CAGATCT
* * *
17118092 TATCTCTCTGAAGTTGCTGAGGAGCGGATTAAAACCCTAGATCT
1 TATCTCTCTGAAGTTGCAGTGGAGCGGA-TAAAACAC-AGATCT
* * * *
17118136 TATCTCTCTGAAGTTGCAGTAGAGCAGATCACATC-CAG-TCT
1 TATCTCTCTGAAGTTGCAGTGGAGCGGAT-AAAACACAGATCT
* * * ** * * *
17118177 TATCCCCCAGAAGTTGCAGTGGAGCAAACGAAAGAAATC-GATCC
1 TATCTCTCTGAAGTTGCAGTGGAGCGGA-TAAA-ACA-CAGATCT
* *
17118221 TATCTCTCTAAAGTTACAGTGGAGCGGATTAAAACCACAGATCT
1 TATCTCTCTGAAGTTGCAGTGGAGCGGA-TAAAA-CACAGATCT
* * * *** **
17118265 TATCTCTCTGAAGTTGTAGTAGAGCAGATCGCATTCAG-TCT
1 TATCTCTCTGAAGTTGCAGTGGAGCGGATAAAACACAGATCT
* *
17118306 TATCTCCCAGAAGTTGCAGTGGAGC
1 TATCTCTCTGAAGTTGCAGTGGAGC
17118331 AGACGAAAAA
Statistics
Matches: 529, Mismatches: 133, Indels: 97
0.70 0.18 0.13
Matches are distributed among these distances:
39 2 0.00
40 27 0.05
41 129 0.24
42 19 0.04
43 60 0.11
44 284 0.54
45 8 0.02
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.26
Consensus pattern (42 bp):
TATCTCTCTGAAGTTGCAGTGGAGCGGATAAAACACAGATCT
Found at i:17118031 original size:129 final size:129
Alignment explanation
Indices: 17117573--17118383 Score: 1254
Period size: 129 Copynumber: 6.3 Consensus size: 129
17117563 GAAGACCCAA
*
17117573 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTTG
* *
17117638 CAGTAGAGCAGGTCACATCCAGTCTTATCTCCCTGAA-TTGCAGTGGAGCAGACGAAAGAAATC
66 CAATAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATC
*
17117701 AATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTTG
*
17117766 CAATAGAGCAGGTCACATCCAGTCTTATCTCCCTGAA-TTGCAGTGGAGCAGACGAAAGAAATC
66 CAATAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATC
17117829 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTTG
* * *
17117894 CAATAGAGCAGGTCACATCCAGTCTTATTTCCCTGAAGTTGTAGTGGAGCAGAC-AACAGAAATC
66 CAATAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAA-AGAAATC
**
17117958 AATCCTATCTCCCTGAAGTTGCAAAGGAGCGGATTAAAACC-CTAGATCTTATCTCTCTAAAGTT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAC-AGATCTTATCTCTCTAAAGTT
*
17118022 GCAATAGAGCAGATCACATACAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATC
65 GCAATAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATC
* * * *
17118087 AATCCTATCTCTCTGAAGTTGCTGAGGAGCGGATTAAAACC-CTAGATCTTATCTCTCTGAAGTT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAC-AGATCTTATCTCTCTAAAGTT
* * * *
17118151 GCAGTAGAGCAGATCACATCCAGTCTTATCCCCCAGAAGTTGCAGTGGAGCAAACGAAAGAAATC
65 GCAATAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATC
* * * * *
17118216 GATCCTATCTCTCTAAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTTG
* * * * * * *
17118281 TAGTAGAGCAGATCGCATTCAGTCTTATCTCCCAGAAGTTGCAGTGGAGCAGACGAAAAAAATT
66 CAATAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATC
* * *
17118345 AATCCTATCTTCCTGAAGTTGTAGTGAAGCGGATTAAAA
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA
17118384 TGATGGATCC
Statistics
Matches: 638, Mismatches: 40, Indels: 9
0.93 0.06 0.01
Matches are distributed among these distances:
128 228 0.36
129 407 0.64
130 3 0.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (129 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTTG
CAATAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAATC
Found at i:17119405 original size:19 final size:19
Alignment explanation
Indices: 17119381--17119427 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
17119371 GTGATTTCAA
*
17119381 CTTTTATTTCTCTGTTTCT
1 CTTTTATTTCTCAGTTTCT
*
17119400 CTTTTATTTTTCAGTTTCT
1 CTTTTATTTCTCAGTTTCT
17119419 -TTTGTATTT
1 CTTT-TATTT
17119428 ATTTCAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 3 0.12
19 22 0.88
ACGTcount: A:0.09, C:0.15, G:0.06, T:0.70
Consensus pattern (19 bp):
CTTTTATTTCTCAGTTTCT
Found at i:17120183 original size:3 final size:3
Alignment explanation
Indices: 17120177--17120226 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
17120167 CTTTTAATAA
* * * *
17120177 TAT TAT TAT TAT TGT TAT TAT TAT TAT TAA TAT TAT CAT TAT TAT AAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
17120225 TA
1 TA
17120227 CCCTTATATA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:17120273 original size:24 final size:25
Alignment explanation
Indices: 17120241--17120308 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 25
17120231 TATATATACG
*
17120241 TTTTT-TATATATATACATATA-TT
1 TTTTTATATATATATACACATACTT
*
17120264 TTTTTATATACT-TACACACATACTT
1 TTTTTATATA-TATATACACATACTT
*
17120289 TTTGTAATATATATATACAC
1 TTT-TTATATATATATACAC
17120309 TTACATATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
23 5 0.14
24 12 0.33
25 7 0.19
26 12 0.33
ACGTcount: A:0.35, C:0.12, G:0.01, T:0.51
Consensus pattern (25 bp):
TTTTTATATATATATACACATACTT
Found at i:17120415 original size:39 final size:39
Alignment explanation
Indices: 17120353--17120430 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 39
17120343 TATATGTGTT
* * *
17120353 CTTTATATTTTATGATTCATACATATATCTATATATATA
1 CTTTATATTTTATGATACATACATACATATATATATATA
* ** *
17120392 CTTTTTATTTTATGATAGTTACATACATATATATGTATA
1 CTTTATATTTTATGATACATACATACATATATATATATA
17120431 TGCTTACTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (39 bp):
CTTTATATTTTATGATACATACATACATATATATATATA
Found at i:17121017 original size:111 final size:111
Alignment explanation
Indices: 17120726--17121274 Score: 888
Period size: 110 Copynumber: 5.0 Consensus size: 111
17120716 TATCAAAAAC
* ** *
17120726 AAAATTTTTAAAATAAGACAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTATCCTAAGGTGTT
1 AAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
17120791 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTA
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTA
* * *
17120837 AAAA-TTTTCAAATAAGGCAATGTTTTGCATTTGGGAAATTCGAGAAAATGTGCCCTAAGGTGCT
1 AAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
17120901 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTA
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTA
* *
17120947 AAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAGAACGTGCCCTAAAGTGCT
1 AAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
*
17121012 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTTAA
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT-A
** *
17121059 AAAATTTTCGAAATAAGGCAATGTTTTGCATTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
1 AAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
**
17121124 GGGTGTCGATTTTTCTTGTTCAACCAAATGGCTAAATATCCTTTT-
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTA
*
17121169 AAAATTTTTAAAATAAGGCAATGTTTTGCGTTT-GAAAATTCGAGAAAACGTGCCCTAAGGTGCT
1 AAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
* * * *
17121233 GGGTGTCGATTTTTCTCATTTAACCGAATAGCCAAATATCCT
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCT
17121275 CTTGAATTTC
Statistics
Matches: 407, Mismatches: 29, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
109 66 0.16
110 133 0.33
111 103 0.25
112 105 0.26
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.34
Consensus pattern (111 bp):
AAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTA
Found at i:17121210 original size:221 final size:221
Alignment explanation
Indices: 17120726--17121274 Score: 931
Period size: 221 Copynumber: 2.5 Consensus size: 221
17120716 TATCAAAAAC
* ** *
17120726 AAAATTTTTAAAATAAGACAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTATCCTAAGGTGTT
1 AAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
17120791 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAATTTTCAAATAAGGCA
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAATTTTCAAATAAGGCA
*
17120856 ATGTTTTGCATTTGGGAAATTCGAGAAAATGTGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATT
131 ATGTTTTGCATTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATT
17120921 CAACCAAATGGCTAAATATCCTTTTA
196 CAACCAAATGGCTAAATATCCTTTTA
* *
17120947 AAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAGAACGTGCCCTAAAGTGCT
1 AAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
*
17121012 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTTAAAAAATTTTCGAAATAAGG
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT-AAAAATTTTC-AAATAAGG
**
17121077 CAATGTTTTGCATTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCTTG
129 CAATGTTTTGCATTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCTCA
17121142 TTCAACCAAATGGCTAAATATCCTTTT-
194 TTCAACCAAATGGCTAAATATCCTTTTA
*
17121169 AAAATTTTTAAAATAAGGCAATGTTTTGCGTTT-GAAAATTCGAGAAAACGTGCCCTAAGGTGCT
1 AAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
* * * *
17121233 GGGTGTCGATTTTTCTCATTTAACCGAATAGCCAAATATCCT
66 GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCT
17121275 CTTGAATTTC
Statistics
Matches: 308, Mismatches: 18, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
221 168 0.55
222 43 0.14
223 97 0.31
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.34
Consensus pattern (221 bp):
AAAATTTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
GGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAATTTTCAAATAAGGCA
ATGTTTTGCATTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATT
CAACCAAATGGCTAAATATCCTTTTA
Found at i:17123152 original size:15 final size:14
Alignment explanation
Indices: 17123119--17123169 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
17123109 AATTTATAAG
**
17123119 AAAAGAATAAAATCA
1 AAAA-AATAAAATTT
17123134 AAAAGAATAAAATTT
1 AAAA-AATAAAATTT
17123149 AAAAAAT--AATTT
1 AAAAAATAAAATTT
17123161 AAAAAATAA
1 AAAAAATAA
17123170 TTTAGGATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 12 0.38
14 3 0.09
15 17 0.53
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.22
Consensus pattern (14 bp):
AAAAAATAAAATTT
Found at i:17123161 original size:12 final size:12
Alignment explanation
Indices: 17123144--17123173 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
17123134 AAAAGAATAA
17123144 AATTTAAAAAAT
1 AATTTAAAAAAT
17123156 AATTTAAAAAAT
1 AATTTAAAAAAT
17123168 AATTTA
1 AATTTA
17123174 GGATTGAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AATTTAAAAAAT
Found at i:17125304 original size:29 final size:29
Alignment explanation
Indices: 17125266--17125325 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
17125256 TGAATGTTTA
17125266 TTTTTAATAGAAATTAAGGAAAACATTAT
1 TTTTTAATAGAAATTAAGGAAAACATTAT
17125295 TTTTTAATAGAAATTAAGGAAAACATTAT
1 TTTTTAATAGAAATTAAGGAAAACATTAT
17125324 TT
1 TT
17125326 CAATGTAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.40
Consensus pattern (29 bp):
TTTTTAATAGAAATTAAGGAAAACATTAT
Found at i:17128875 original size:2 final size:2
Alignment explanation
Indices: 17128870--17128894 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17128860 TTTTTTGAGT
17128870 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
17128895 GTGAGGCAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17130317 original size:18 final size:18
Alignment explanation
Indices: 17130280--17130313 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17130270 AATAAAGGGG
17130280 AAGAAGAAAAAGAAAATA
1 AAGAAGAAAAAGAAAATA
*
17130298 AAGAAGTAAAA-AAAAT
1 AAGAAGAAAAAGAAAAT
17130314 TAAATTATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (18 bp):
AAGAAGAAAAAGAAAATA
Found at i:17132316 original size:17 final size:17
Alignment explanation
Indices: 17132294--17132335 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
17132284 GGCCTGAGGT
* *
17132294 GGCCCAAACCCAACTGA
1 GGCCCAAACCAAACAGA
17132311 GGCCCAAACCAAACAGA
1 GGCCCAAACCAAACAGA
*
17132328 AGCCCAAA
1 GGCCCAAA
17132336 GCAGATTTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.43, C:0.38, G:0.17, T:0.02
Consensus pattern (17 bp):
GGCCCAAACCAAACAGA
Found at i:17133713 original size:22 final size:21
Alignment explanation
Indices: 17133685--17133745 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
17133675 CTTCGTAATT
17133685 TCATTTATTATAT-TTATATTG
1 TCATTTATTATATATTATA-TG
17133706 CTCATTTATTTGATATATTATATG
1 -TCATTTA-TT-ATATATTATATG
* *
17133730 TCATTAATTATTTATT
1 TCATTTATTATATATT
17133746 TGTTCATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 6 0.18
22 9 0.26
23 8 0.24
24 6 0.18
25 5 0.15
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.59
Consensus pattern (21 bp):
TCATTTATTATATATTATATG
Found at i:17137180 original size:19 final size:20
Alignment explanation
Indices: 17137156--17137193 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
17137146 TCTTATTTGT
17137156 AATTT-ATTT-TATGTAAAGG
1 AATTTAATTTCTA-GTAAAGG
17137175 AATTTAATTTCTAGTAAAG
1 AATTTAATTTCTAGTAAAG
17137194 TTTTCTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.29
20 10 0.59
21 2 0.12
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (20 bp):
AATTTAATTTCTAGTAAAGG
Found at i:17145561 original size:44 final size:43
Alignment explanation
Indices: 17145468--17145584 Score: 132
Period size: 44 Copynumber: 2.7 Consensus size: 43
17145458 AAATTGAGTT
*
17145468 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-ATAATC
* *
17145512 CTATCTCCCTGAACTTGCAGTGGAG-AGAATTAAAACC-TCAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTAAAACCAT-A-ATC
* *
17145556 TTATCTCTCTGAAGTTGCAG-AGAGCAGAT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGAT
17145585 CGCATCTAGT
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
42 1 0.02
43 8 0.13
44 53 0.85
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (43 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCATAATC
Found at i:17146092 original size:532 final size:524
Alignment explanation
Indices: 17145066--17146075 Score: 1300
Period size: 532 Copynumber: 1.9 Consensus size: 524
17145056 CACCCTGAGA
17145066 GTGGTGTGAACAAATTGCATAATTTGTATCCTTGAAATGCGATAAGAGAAGACTGAGAAGAGTCA
1 GTGGTGTGAACAAATTGCATAATTTGTATCCTTGAAATGCGATAAGAGAAGACTGAGAAGAGTCA
17145131 AATTTTCCTACTTTAAGGTCACGGTGGAAGAAATATAGTACAAATTCTGTGTCCAAGAAGTTTGA
66 AATTTTCCTACTTTAAGGTCACGGTGGAAGAAATATAGTACAAATTCTGTGTCCAAGAAGTTTGA
*
17145196 GTTTTGAAGCGCACAATGGGGGGCAACTTGATTGAGTGTTTTTCTAAGAGAACAGACAAGCAAAG
131 GTTTTGAAGCGCACAATAGGGGGCAACTTGATTGAGTGTTTTTCTAAGAGAACAGACAAGCAAAG
*** * * * *
17145261 GGCGTCAGCGACAAAACCTTAATAAACTTAAAAAAAATGATAATTCTTGAAAAATGACATTCTGC
196 CAAGTCAGC-AC--AACCTGAATAAACTGAAAAAAAATGA-AA-TCGTGAAAAAT-ACATTCTCC
**
17145326 ATTCATTCAAATGTCATTCACACATGTCTAGTTAGGAGCGTTTGATGCATTTTTATGCCATCCTA
255 ATGAATTCAAATGTCATTCACACATGTCTAGTTAGGAGCGTTTGATGCATTTTTATGCCATCCTA
17145391 ATCATTAGGCATAATTAGGTTCACTATACAGGTTATGTTCCCCAGAGAGCAGATCAGTAAAGATA
320 ATCATTAGGCATAATTAGGTTCACTATACAGGTTATGTTCCCCAGAGAGCAGATCAGTAAAGATA
* * * * *
17145456 ATAAATTGAGTTTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCC
385 ATAAATTGAGTCTTATCTCCCTGAAGTTGCAGTAGAACAGATCAAAGCC-A-AATCATATCTCCC
* * *
17145521 TGAACTTGCAGTGGAGAGAATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATC
448 TGAACTTGCAGTGGAGACAAATAAAACCTAAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATC
17145586 GCATCTAGTCAT
513 GCATCTAGTCAT
17145598 GTGGTGTGAACAAATTGCATAATTTGTATCCTTGAAATGCGATAAGAGAAGACTGAGAAGAGTCA
1 GTGGTGTGAACAAATTGCATAATTTGTATCCTTGAAATGCGATAAGAGAAGACTGAGAAGAGTCA
17145663 AATTTTCCTACTTTAAGGTCACGGTGGAAGAAATATAGTACAAATTCTGTGTCCAAGAAGTTTGA
66 AATTTTCCTACTTTAAGGTCACGGTGGAAGAAATATAGTACAAATTCTGTGTCCAAGAAGTTTGA
* * *
17145728 GTTTTGAAGCGCACAATAGGGGGCAACTTGATTGAGTGTTTTTCGAGTTGCAGTGGAGCAGACTA
131 GTTTTGAAGCGCACAATAGGGGGCAACTTGATTGAGTGTTTTTC----T-AAG-AGAACAGAC-A
* * ** * *** * * * ** *
17145793 AGCAAAGCAAGTCTTATC-C-TCCTGAAGTTGCAGTGAGGCAGACTG-AA-GGTGGCAAAT-CTT
189 AGCAAAGCAAGTC--AGCACAACCTGAA--TAAACTGAAAAAAAATGAAATCGTGAAAAATACAT
* **
17145853 ATCTCCCTGAAGTTGTAATGTCATTCACACATGTCTAGTTAGGAGCGTTTGATGCATTTTTATGC
250 -TCTCCATGAA-TTCAAATGTCATTCACACATGTCTAGTTAGGAGCGTTTGATGCATTTTTATGC
17145918 CATCCTAATCATTAGGCATAATTAGGTTCACTATACAGGTTATGTTCCCCAGAGAGCAGATCAGT
313 CATCCTAATCATTAGGCATAATTAGGTTCACTATACAGGTTATGTTCCCCAGAGAGCAGATCAGT
* * * ** * *
17145983 AACGGATTAA-AACCTT-AGATCTTATCTCTCTGAAGTTGCAG-AGAACAGATCGCATCC-AGTC
378 AA-AGA-TAATAA-ATTGAG-TCTTATCTCCCTGAAGTTGCAGTAGAACAGATCAAAGCCAAATC
** *
17146044 ATATCTCCCTGAGGTTGCAGTGGAGCCAAATA
439 ATATCTCCCTGAACTTGCAGTGGAGACAAATA
17146076 CGTAAGCAAG
Statistics
Matches: 414, Mismatches: 47, Indels: 34
0.84 0.09 0.07
Matches are distributed among these distances:
532 204 0.49
533 6 0.01
534 124 0.30
535 16 0.04
536 33 0.08
537 2 0.00
538 15 0.04
539 12 0.03
541 2 0.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (524 bp):
GTGGTGTGAACAAATTGCATAATTTGTATCCTTGAAATGCGATAAGAGAAGACTGAGAAGAGTCA
AATTTTCCTACTTTAAGGTCACGGTGGAAGAAATATAGTACAAATTCTGTGTCCAAGAAGTTTGA
GTTTTGAAGCGCACAATAGGGGGCAACTTGATTGAGTGTTTTTCTAAGAGAACAGACAAGCAAAG
CAAGTCAGCACAACCTGAATAAACTGAAAAAAAATGAAATCGTGAAAAATACATTCTCCATGAAT
TCAAATGTCATTCACACATGTCTAGTTAGGAGCGTTTGATGCATTTTTATGCCATCCTAATCATT
AGGCATAATTAGGTTCACTATACAGGTTATGTTCCCCAGAGAGCAGATCAGTAAAGATAATAAAT
TGAGTCTTATCTCCCTGAAGTTGCAGTAGAACAGATCAAAGCCAAATCATATCTCCCTGAACTTG
CAGTGGAGACAAATAAAACCTAAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAG
TCAT
Found at i:17146177 original size:96 final size:96
Alignment explanation
Indices: 17146004--17146195 Score: 323
Period size: 96 Copynumber: 2.0 Consensus size: 96
17145994 ACCTTAGATC
*
17146004 TTATCTCTCTGAAGTTGCAGAGAACAGATCGCATCCAGTCATATCTCCCTGAGGTTGCAGTGGAG
1 TTATCTCTCTAAAGTTGCAGAGAACAGATCGCATCCAGTCATATCTCCCTGAGGTTGCAGTGGAG
17146069 CCAAATACGTAAGCAAGTCTTATCCTCCTGA
66 CCAAATACGTAAGCAAGTCTTATCCTCCTGA
* * *
17146100 TTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCTAGTCATGTCTCCCTGAGGTTGCAGTGGAG
1 TTATCTCTCTAAAGTTGCAGAGAACAGATCGCATCCAGTCATATCTCCCTGAGGTTGCAGTGGAG
*
17146165 -CAGAATATGTAAGCAAGTCTTATCCTCCTGA
66 CCA-AATACGTAAGCAAGTCTTATCCTCCTGA
17146196 AGTTGCAGTG
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
95 2 0.02
96 88 0.98
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (96 bp):
TTATCTCTCTAAAGTTGCAGAGAACAGATCGCATCCAGTCATATCTCCCTGAGGTTGCAGTGGAG
CCAAATACGTAAGCAAGTCTTATCCTCCTGA
Found at i:17146201 original size:44 final size:45
Alignment explanation
Indices: 17146143--17146562 Score: 184
Period size: 45 Copynumber: 9.6 Consensus size: 45
17146133 TCTAGTCATG
* * *
17146143 TCTCCCTGAGGTTGCAGTGGAGCAGAAT-ATGTAAG-CAAGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGAATGAAG-AAGTCAAATCTTA
* *
17146187 TC-CTCCTGAAGTTGCAGT-GAGACAGACTGAAGATGTCAAATCTTA
1 TCTC-CCTGAAGTTGCAGTGGAG-CAGAATGAAGAAGTCAAATCTTA
* * ** * *
17146232 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAC-AATCCTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGAATGAAGAAGTCAAATCTTA
* * * * * * *
17146276 TCTCCCTAAAGTTACAGTGGAG-TGGATTAA-AATCTCAGATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGAATGAAGAA-GTCAAATCTTA
* * * * * * * *
17146320 TCTCTCTGAAGATGCAG-AGAGTAG-AT--CGCA-TCTAGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGAATGAAGAAGTCAAATCTTA
* * *
17146360 TCTCCCTGAGGTTGCAGTGGAGCAGACT-AAGCAAAG-CAAGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGAATGAAG--AAGTCAAATCTTA
* * ** *
17146405 TC-CTCCTGAAGTTGCAGT-AAGGCAGACTGAAGGTGGCAAATCTTA
1 TCTC-CCTGAAGTTGCAGTGGA-GCAGAATGAAGAAGTCAAATCTTA
* * *
17146450 TCTCCCTGAAGTTGTAGTAGAGCAG-AT--A-AAGTCGACAATCCTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGAATGAAGAAGTC-A-AATCTTA
* * * **
17146493 TCTCCCTGAAGTTGCAGTGGAGC-GGATTAA-AACCTCTGATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGAATGAAGAA-GTCAAATCTTA
*
17146537 TC-CCTCTGAAGTTGTAGTGGAGCAGA
1 TCTCC-CTGAAGTTGCAGTGGAGCAGA
17146563 CTGGTGGATC
Statistics
Matches: 283, Mismatches: 63, Indels: 59
0.70 0.16 0.15
Matches are distributed among these distances:
40 21 0.07
41 7 0.02
42 5 0.02
43 46 0.16
44 95 0.34
45 98 0.35
46 11 0.04
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (45 bp):
TCTCCCTGAAGTTGCAGTGGAGCAGAATGAAGAAGTCAAATCTTA
Found at i:17146384 original size:217 final size:217
Alignment explanation
Indices: 17146100--17146547 Score: 691
Period size: 217 Copynumber: 2.1 Consensus size: 217
17146090 ATCCTCCTGA
* * *
17146100 TTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCTAGTCATGTCTCCCTGAGGTTGCAGTGGAG
1 TTATCTCTCTGAAGATGCAGAGAGCAGATCGCATCTAGTCATATCTCCCTGAGGTTGCAGTGGAG
* * * *
17146165 CAGAATATG-TAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGACAGACTGAAGATGTCAAATC
66 CAGAATAAGCAAAGCAAGTCTTATCCTCCTGAAGTTGCAGTAAGACAGACTGAAGATGGCAAATC
*
17146229 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTAAAGTTACAGT
131 TTATCTCCCTGAAGTTGCAGTAGAGCAGA-TAAAGCCGACAATCCTATCTCCCTAAAGTTACAGT
* *
17146294 GGAGTGGATTAAAATCTCAGATC
195 GGAGCGGATTAAAACCTCAGATC
* *
17146317 TTATCTCTCTGAAGATGCAGAGAGTAGATCGCATCTAGTCTTATCTCCCTGAGGTTGCAGTGGAG
1 TTATCTCTCTGAAGATGCAGAGAGCAGATCGCATCTAGTCATATCTCCCTGAGGTTGCAGTGGAG
* * *
17146382 CAGACTAAGCAAAGCAAGTCTTATCCTCCTGAAGTTGCAGTAAGGCAGACTGAAGGTGGCAAATC
66 CAGAATAAGCAAAGCAAGTCTTATCCTCCTGAAGTTGCAGTAAGACAGACTGAAGATGGCAAATC
* * * *
17146447 TTATCTCCCTGAAGTTGTAGTAGAGCAGATAAAGTCGACAATCCTATCTCCCTGAAGTTGCAGTG
131 TTATCTCCCTGAAGTTGCAGTAGAGCAGATAAAGCCGACAATCCTATCTCCCTAAAGTTACAGTG
*
17146512 GAGCGGATTAAAACCTCTGATC
196 GAGCGGATTAAAACCTCAGATC
*
17146534 TTATCCCTCTGAAG
1 TTATCTCTCTGAAG
17146548 TTGTAGTGGA
Statistics
Matches: 209, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
217 132 0.63
218 77 0.37
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (217 bp):
TTATCTCTCTGAAGATGCAGAGAGCAGATCGCATCTAGTCATATCTCCCTGAGGTTGCAGTGGAG
CAGAATAAGCAAAGCAAGTCTTATCCTCCTGAAGTTGCAGTAAGACAGACTGAAGATGGCAAATC
TTATCTCCCTGAAGTTGCAGTAGAGCAGATAAAGCCGACAATCCTATCTCCCTAAAGTTACAGTG
GAGCGGATTAAAACCTCAGATC
Found at i:17146841 original size:17 final size:17
Alignment explanation
Indices: 17146819--17146860 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
17146809 GGCCCGAGAT
* *
17146819 GGCCCAAACCCAACTGA
1 GGCCCAAACCAAACAGA
17146836 GGCCCAAACCAAACAGA
1 GGCCCAAACCAAACAGA
*
17146853 AGCCCAAA
1 GGCCCAAA
17146861 GCAGATTTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.43, C:0.38, G:0.17, T:0.02
Consensus pattern (17 bp):
GGCCCAAACCAAACAGA
Found at i:17148235 original size:22 final size:21
Alignment explanation
Indices: 17148207--17148267 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
17148197 CTTCGTAATT
17148207 TCATTTATTATAT-TTATATTG
1 TCATTTATTATATATTATA-TG
17148228 CTCATTTATTTGATATATTATATG
1 -TCATTTA-TT-ATATATTATATG
* *
17148252 TCATTCATTATTTATT
1 TCATTTATTATATATT
17148268 TGTTCATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 6 0.18
22 9 0.26
23 8 0.24
24 6 0.18
25 5 0.15
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.59
Consensus pattern (21 bp):
TCATTTATTATATATTATATG
Found at i:17154628 original size:24 final size:24
Alignment explanation
Indices: 17154598--17154656 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
17154588 ACATATCTAA
17154598 AATAATATTAA-TTTTTGCTTCAAT
1 AATAATATTAACTTTTT-CTTCAAT
*
17154622 AATAATATTAACTTTTTTTTCAAT
1 AATAATATTAACTTTTTCTTCAAT
17154646 AATAATATTAA
1 AATAATATTAA
17154657 ATTTCTGATT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (24 bp):
AATAATATTAACTTTTTCTTCAAT
Found at i:17158092 original size:14 final size:14
Alignment explanation
Indices: 17158073--17158099 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17158063 ACTATATTCC
17158073 CACTTTTACTGGTT
1 CACTTTTACTGGTT
17158087 CACTTTTACTGGT
1 CACTTTTACTGGT
17158100 CCATGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.22, G:0.15, T:0.48
Consensus pattern (14 bp):
CACTTTTACTGGTT
Found at i:17160927 original size:64 final size:64
Alignment explanation
Indices: 17160818--17160958 Score: 264
Period size: 64 Copynumber: 2.2 Consensus size: 64
17160808 GACTAATGGC
*
17160818 ACGCTCTATAATTGACACATGTGCACTAAAATGAGTTAATTTATTAATCCTAAACATATTATAT
1 ACGCTCTATAATTGACACATGTGCACTAAAATGAGTTAATGTATTAATCCTAAACATATTATAT
*
17160882 ACGCTCTATAATTGACACATGTGCACTAAAATGAGTTGATGTATTAATCCTAAACATATTATAT
1 ACGCTCTATAATTGACACATGTGCACTAAAATGAGTTAATGTATTAATCCTAAACATATTATAT
17160946 ACGCTCTATAATT
1 ACGCTCTATAATT
17160959 AGTCAAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 75 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (64 bp):
ACGCTCTATAATTGACACATGTGCACTAAAATGAGTTAATGTATTAATCCTAAACATATTATAT
Done.